Non-Coding RNA Search

Ss1.1-Pig4-TMW8032L01.3

Sequence:


               
               TTTGGTGGTAATCCAGGTGGCTTTGGGAATCAGGGTGGCTTTGGTAACAGTAGAGGGGGT
GGAGCTGGTTTGGGGAACAATCAAGGTAGTAACATGGGTGGAGGGATGAACTTTGGTGCT
TTCAGCATCAATCCAGCGATGATGGCTGCAGCCCAGGCGGCTCTGCAGAGCAGCTGGGGT
ATGATGGGCATGTTAGCCAGTCAGCAGAACCAGTCAGGCCCATCGGGTAATAACCAAAGC
CAAGGCAACATGCAAAGAGAGCCAAACCAGGCCTTTGGTTCTGGAAATAACTCGTATAGT
GGTTCTAATTCAGGGGCAGCGATTGGTTGGGGATCAGCATCAAATGCAGGGTCAGGCAGT
GGTTTTAATGGAGGCTTTGGCTCAAGCATGGATTCCAAATCTTCGGGCTGGGGAATGTAG
ACGTTGGGTTATGGTTGGTTGGTATAGACTGGTGGGAATTCAAATTTTTCTAAACTCATG
GTAAGTATATTGTAAAATACATATGTACTAAGAATTTTCAAAATTGGTTTGTTCGGTGTG
GAGTATATTCAGCAGTATTTTTGACATTTTTCTTTAGAAAAAGGAAGAGCTAAAGGAATT
TTATAAGTTTTGTTACATAAAGGGTTGAAATATTGAGTGTTTGAAAGTGAACTGCTGTTT
GCCTGATTGGTAAACCAACACACTACAATTGATATCAAAAGGTTTCTCCTGTAATATTTT
ATCCCTGGACTTGTCAAGTGAATTCTTTGCATGTTCAAAATGGAAACCATTGATTAGAAC
TACATTCTTTTCTCCTTGTTTTAATTTGAACCCCACCATATGGATTTTTCCCTTAGGAAA
ATCTCCTTTTTGGAGATCATGGTGTCACAGTGTTCTTTCGTTTTCGTTTTTGTTTTTTTA
ACACTTGTCTCCCTTCATATACAAAAGTACAATATGAAGCCTTCATTTAATCTCTGCAGT
TCATCTCATTTCAAATGTTTATGGAAGAAGCACTTCATTGAAAGTAGTGCTGTAAATACT
CTGCCATAGGAATACTTCTGTCTACATGCTTTCTCATTCAAGAATTCGTCATCACGCTGC
ACAGGCTGCGTCTTTGACGGTGGGTGTCCCATTTTTATCCGCTACTCTTTATTTCATGGA
GTCGTATCAACGCTATGAACGCAAGGCTGTGATAATGGAACCAGAAGGCTGTTTGAACTT
TTGAAACCTTGTGTGGGATTGATGGTGGTGCCGAGGCATGAAAGGCTAGTATGAGCGAGA
AAAGGAGAGAGCGCGTGCAGAGACTTGGTGGTGCATAATGGATATTTTTTAACTTGGCGA
GATGTGTCTCTCAATCCTGTGGCTTTGGTGAGAGAGTGTGCAGAGAGCAATGATAGCAAA
TAATGTACGAATGTTTTTTACATTCAAAGGACATCCACGTCTGTTGGAAGACTTTTAAGT
GAGTTTTGTTCTTAGATAACCCACGTTAGCTGAATGTGTTAAGTGAAACGATACTTGTAT
TTCCCTGCCCCTTTGTCAACTGCTGTGAATGCTGTATGGTGTGTGTTCTCTTCTGTTACT
GATCTGTAAGTGTGGTCACGTGAACTGAAGCTGATGGGTTGACAACATGGACTGAGCTTG
TGGTGTGCTTTGCAGGAGTACTTGGAAGCAGAGTTCACCAGTGAGCTCGGGGTGTCTCAC
AGAAGGGTGGAAGTTCTAATGTCTGTTAGCTACTCATAAGAATGCTGTTTGCTGCAGTTC
TGTGTCCTGTGCTTGGATGCTTTTTATAAGAGTTGTCACTGTTGGAAATTCTTAAATAAA
ACTGATTTAAATAAAAAAAAAAAAAAAAAAAAAAAACTGAATGCAAAGAATTCATAGCAG
TTAATTCCCCTTTTTTGACCCTTTTGAGATGGAACTTTCATAAAGTTTCTTGGCAATAGT
TTATTTTGCTTCAAATAAACTTAT

Sequence:

Distiller database | Help | Less info

Blue-coloured subsequences are predicted RNA structures by RNAz


               
               TTTGGTGGTAATCCAGGTGGCTTTGGGAATCAGGGTGGCTTTGGTAACAGTAGAGGGGGT
GGAGCTGGTTTGGGGAACAATCAAGGTAGTAACATGGGTGGAGGGATGAACTTTGGTGCT
TTCAGCATCAATCCAGCGATGATGGCTGCAGCCCAGGCGGCTCTGCAGAGCAGCTGGGGT
ATGATGGGCATGTTAGCCAGTCAGCAGAACCAGTCAGGCCCATCGGGTAATAACCAAAGC
CAAGGCAACATGCAAAGAGAGCCAAACCAGGCCTTTGGTTCTGGAAATAACTCGTATAGT
GGTTCTAATTCAGGGGCAGCGATTGGTTGGGGATCAGCATCAAATGCAGGGTCAGGCAGT
GGTTTTAATGGAGGCTTTGGCTCAAGCATGGATTCCAAATCTTCGGGCTGGGGAATGTAG
ACGTTGGGTTATGGTTGGTTGGTATAGACTGGTGGGAATTCAAATTTTTCTAAACTCATG
GTAAGTATATTGTAAAATACATATGTACTAAGAATTTTCAAAATTGGTTTGTTCGGTGTG
GAGTATATTCAGCAGTATTTTTGACATTTTTCTTTAGAAAAAGGAAGAGCTAAAGGAATT
TTATAAGTTTTGTTACATAAAGGGTTGAAATATTGAGTGTTTGAAAGTGAACTGCTGTTT
GCCTGATTGGTAAACCAACACACTACAATTGATATCAAAAGGTTTCTCCTGTAATATTTT
ATCCCTGGACTTGTCAAGTGAATTCTTTGCATGTTCAAAATGGAAACCATTGATTAGAAC
TACATTCTTTTCTCCTTGTTTTAATTTGAACCCCACCATATGGATTTTTCCCTTAGGAAA
ATCTCCTTTTTGGAGATCATGGTGTCACAGTGTTCTTTCGTTTTCGTTTTTGTTTTTTTA
ACACTTGTCTCCCTTCATATACAAAAGTACAATATGAAGCCTTCATTTAATCTCTGCAGT
TCATCTCATTTCAAATGTTTATGGAAGAAGCACTTCATTGAAAGTAGTGCTGTAAATACT
CTGCCATAGGAATACTTCTGTCTACATGCTTTCTCATTCAAGAATTCGTCATCACGCTGC
ACAGGCTGCGTCTTTGACGGTGGGTGTCCCATTTTTATCCGCTACTCTTTATTTCATGGA
GTCGTATCAACGCTATGAACGCAAGGCTGTGATAATGGAACCAGAAGGCTGTTTGAACTT
TTGAAACCTTGTGTGGGATTGATGGTGGTGCCGAGGCATGAAAGGCTAGTATGAGCGAGA
AAAGGAGAGAGCGCGTGCAGAGACTTGGTGGTGCATAATGGATATTTTTTAACTTGGCGA
GATGTGTCTCTCAATCCTGTGGCTTTGGTGAGAGAGTGTGCAGAGAGCAATGATAGCAAA
TAATGTACGAATGTTTTTTACATTCAAAGGACATCCACGTCTGTTGGAAGACTTTTAAGT
GAGTTTTGTTCTTAGATAACCCACGTTAGCTGAATGTGTTAAGTGAAACGATACTTGTAT
TTCCCTGCCCCTTTGTCAACTGCTGTGAATGCTGTATGGTGTGTGTTCTCTTCTGTTACT
GATCTGTAAGTGTGGTCACGTGAACTGAAGCTGATGGGTTGACAACATGGACTGAGCTTG
TGGTGTGCTTTGCAGGAGTACTTGGAAGCAGAGTTCACCAGTGAGCTCGGGGTGTCTCAC
AGAAGGGTGGAAGTTCTAATGTCTGTTAGCTACTCATAAGAATGCTGTTTGCTGCAGTTC
TGTGTCCTGTGCTTGGATGCTTTTTATAAGAGTTGTCACTGTTGGAAATTCTTAAATAAA
ACTGATTTAAATAAAAAAAAAAAAAAAAAAAAAAAACTGAATGCAAAGAATTCATAGCAG
TTAATTCCCCTTTTTTGACCCTTTTGAGATGGAACTTTCATAAAGTTTCTTGGCAATAGT
TTATTTTGCTTCAAATAAACTTAT

Predicted RNA structure(s): 2 entry(ies)

More info

Predicted RNA structure(s): 2 entry(ies)

Help | Less info


               
               771-929, - strand, RNAz p=0.985899
               

               
               1552-1751, - strand, RNAz p=0.943565

Predicted RNA structure(s): 2 entry(ies)

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PigEST conread start position and end position of the predicted RNA structure by RNAz,
PigEST conread reading direction of predicted structure,
ncRNA classificator p of RNAz


               
               771-929, - strand, RNAz p=0.985899
               

               
               1552-1751, - strand, RNAz p=0.943565

Predicted microRNA(s): 1 entry(ies)

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Predicted microRNA(s): 1 entry(ies)

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               1650-1729, + strand, RNAmicro p=0.999968

Predicted microRNA(s): 1 entry(ies)

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PigEST conread start position and end position of the predicted microRNA,
PigEST conread reading direction of prediction,
miRNA classificator p of RNAmicro


               
               1650-1729, + strand, RNAmicro p=0.999968

Similar Transcript(s): 6 entry(ies)

More info

Similar Transcript(s): 6 entry(ies)

Help | Less info


               
               771-870, UMN41H11 Canine Brain cDNA Library Canis familiaris cDNA 5' similar 
(gb|BI430526.1|), blast E-value=1.99993e-41, identity=97% 
               

               
               771-874, K-EST0176877 C1SNU17 Homo sapiens cDNA clone C1SNU17-21-F05 5', 
(gb|CB127571.1|), blast E-value=9e-37, identity=95.24% 
               

               
               771-874, CH3#062_G12MR Canine heart normalized cDNA Library in pBluescript 
(gb|CF409799.1|), blast E-value=1.4013e-45, identity=98.08% 
               

               
               771-874, CT020025A10H05 Equine Articular Cartilage cDNA Library Equus 
(gb|CX599934.1|), blast E-value=5.99994e-41, identity=96.15% 
               

               
               771-874, LIB3629-001-Q6-K1-A3 LIB3629 Canis familiaris cDNA clone 
(gb|DN366441.1|), blast E-value=6.02558e-44, identity=97.12% 
               

               
               771-875, POSM0605012_N02R porcine skeletal muscle cDNA library (PoSM) Sus 
(gb|DV900063.1|), blast E-value=0, identity=100%

Similar Transcript(s): 6 entry(ies)

Help | Less info

PigEST conread start position and end position of sequence similarity to another annotated EST (NCBI dbEST),
transcript identifier and annotation,
blast E-value,
PigEST conread identity to the similar transcript


               
               771-870, UMN41H11 Canine Brain cDNA Library Canis familiaris cDNA 5' similar 
(gb|BI430526.1|), blast E-value=1.99993e-41, identity=97% 
               

               
               771-874, K-EST0176877 C1SNU17 Homo sapiens cDNA clone C1SNU17-21-F05 5', 
(gb|CB127571.1|), blast E-value=9e-37, identity=95.24% 
               

               
               771-874, CH3#062_G12MR Canine heart normalized cDNA Library in pBluescript 
(gb|CF409799.1|), blast E-value=1.4013e-45, identity=98.08% 
               

               
               771-874, CT020025A10H05 Equine Articular Cartilage cDNA Library Equus 
(gb|CX599934.1|), blast E-value=5.99994e-41, identity=96.15% 
               

               
               771-874, LIB3629-001-Q6-K1-A3 LIB3629 Canis familiaris cDNA clone 
(gb|DN366441.1|), blast E-value=6.02558e-44, identity=97.12% 
               

               
               771-875, POSM0605012_N02R porcine skeletal muscle cDNA library (PoSM) Sus 
(gb|DV900063.1|), blast E-value=0, identity=100%

Aligned organism(s): 3 entry(ies)

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Aligned organism(s): 3 entry(ies)

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               3-1944, gnl|bosTau2|chr10 (41287875-41285983)
               

               
               3-1944, gnl|Hg17|chr1 (11016560-11018496)
               

               
               3-1944, gnl|Mm7|chr4 (147608220-147606278)

Aligned organism(s): 3 entry(ies)

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PigEST conread start position and end position of the aligned locus,
aligned organism with chromosome (chromosome position)
closely related Artiodactyla cow is linked to the PigEST - Genome Map


               
               3-1944, gnl|bosTau2|chr10 (41287875-41285983)
               

               
               3-1944, gnl|Hg17|chr1 (11016560-11018496)
               

               
               3-1944, gnl|Mm7|chr4 (147608220-147606278)

Expressed library(ies): 49 entry(ies)

More info

Expressed library(ies): 49 entry(ies)

Help | Less info


               
               liv (1.75541)
               

               
               cbe (1.43541)
               

               
               sto (1.07894)
               

               
               cmu (0.745573)
               

               
               vin (0.665115)
               

               
               sme (0.610874)
               

               
               cte (0.58548)
               

               
               ret (0.514933)
               

               
               amn (0.417711)
               

               
               hea (0.408998)
               

               
               aor (0.390549)
               

               
               ova (0.387397)
               

               
               sug (0.381874)
               

               
               bla (0.373042)
               

               
               gul (0.355177)
               

               
               fbs (0.350693)
               

               
               cbl (0.344392)
               

               
               eye (0.341006)
               

               
               spc (0.340097)
               

               
               isp (0.300752)
               

               
               csk (0.281492)
               

               
               kid (0.259471)
               

               
               thg (0.253582)
               

               
               ece (0.229305)
               

               
               tes (0.207814)
               

               
               fcc (0.197785)
               

               
               ldo (0.194005)
               

               
               nlu (0.191681)
               

               
               nep (0.183925)
               

               
               fty (0.17584)
               

               
               ill (0.175593)
               

               
               sin (0.174948)
               

               
               tbr (0.154178)
               

               
               ctl (0.153069)
               

               
               ski (0.146735)
               

               
               spl (0.143184)
               

               
               pty (0.142714)
               

               
               lnt (0.142308)
               

               
               cst (0.140036)
               

               
               ssp (0.13552)
               

               
               lyg (0.133103)
               

               
               eru (0.120048)
               

               
               clu (0.119646)
               

               
               pgl (0.118483)
               

               
               ebs (0.118301)
               

               
               ecc (0.115035)
               

               
               cty (0.10408)
               

               
               nbm (0.0993246)
               

               
               jej (0.0989218)

Expressed library(ies): 49 entry(ies)

Help | Less info

Short name of the library (expression score),
see https://rth.dk/resources/pigest/download/pigest_kvl_1.0.1/cDNA_names.html for library description


               
               liv (1.75541)
               

               
               cbe (1.43541)
               

               
               sto (1.07894)
               

               
               cmu (0.745573)
               

               
               vin (0.665115)
               

               
               sme (0.610874)
               

               
               cte (0.58548)
               

               
               ret (0.514933)
               

               
               amn (0.417711)
               

               
               hea (0.408998)
               

               
               aor (0.390549)
               

               
               ova (0.387397)
               

               
               sug (0.381874)
               

               
               bla (0.373042)
               

               
               gul (0.355177)
               

               
               fbs (0.350693)
               

               
               cbl (0.344392)
               

               
               eye (0.341006)
               

               
               spc (0.340097)
               

               
               isp (0.300752)
               

               
               csk (0.281492)
               

               
               kid (0.259471)
               

               
               thg (0.253582)
               

               
               ece (0.229305)
               

               
               tes (0.207814)
               

               
               fcc (0.197785)
               

               
               ldo (0.194005)
               

               
               nlu (0.191681)
               

               
               nep (0.183925)
               

               
               fty (0.17584)
               

               
               ill (0.175593)
               

               
               sin (0.174948)
               

               
               tbr (0.154178)
               

               
               ctl (0.153069)
               

               
               ski (0.146735)
               

               
               spl (0.143184)
               

               
               pty (0.142714)
               

               
               lnt (0.142308)
               

               
               cst (0.140036)
               

               
               ssp (0.13552)
               

               
               lyg (0.133103)
               

               
               eru (0.120048)
               

               
               clu (0.119646)
               

               
               pgl (0.118483)
               

               
               ebs (0.118301)
               

               
               ecc (0.115035)
               

               
               cty (0.10408)
               

               
               nbm (0.0993246)
               

               
               jej (0.0989218)

	771-929, - strand, RNAz p=0.985899
	1552-1751, - strand, RNAz p=0.943565

	771-870, UMN41H11 Canine Brain cDNA Library Canis familiaris cDNA 5' similar (gb\|BI430526.1\|), blast E-value=1.99993e-41, identity=97%
	771-874, K-EST0176877 C1SNU17 Homo sapiens cDNA clone C1SNU17-21-F05 5', (gb\|CB127571.1\|), blast E-value=9e-37, identity=95.24%
	771-874, CH3#062_G12MR Canine heart normalized cDNA Library in pBluescript (gb\|CF409799.1\|), blast E-value=1.4013e-45, identity=98.08%
	771-874, CT020025A10H05 Equine Articular Cartilage cDNA Library Equus (gb\|CX599934.1\|), blast E-value=5.99994e-41, identity=96.15%
	771-874, LIB3629-001-Q6-K1-A3 LIB3629 Canis familiaris cDNA clone (gb\|DN366441.1\|), blast E-value=6.02558e-44, identity=97.12%
	771-875, POSM0605012_N02R porcine skeletal muscle cDNA library (PoSM) Sus (gb\|DV900063.1\|), blast E-value=0, identity=100%

	3-1944, gnl\|bosTau2\|chr10 (41287875-41285983)
	3-1944, gnl\|Hg17\|chr1 (11016560-11018496)
	3-1944, gnl\|Mm7\|chr4 (147608220-147606278)

	liv (1.75541)
	cbe (1.43541)
	sto (1.07894)
	cmu (0.745573)
	vin (0.665115)
	sme (0.610874)
	cte (0.58548)
	ret (0.514933)
	amn (0.417711)
	hea (0.408998)
	aor (0.390549)
	ova (0.387397)
	sug (0.381874)
	bla (0.373042)
	gul (0.355177)
	fbs (0.350693)
	cbl (0.344392)
	eye (0.341006)
	spc (0.340097)
	isp (0.300752)
	csk (0.281492)
	kid (0.259471)
	thg (0.253582)
	ece (0.229305)
	tes (0.207814)
	fcc (0.197785)
	ldo (0.194005)
	nlu (0.191681)
	nep (0.183925)
	fty (0.17584)
	ill (0.175593)
	sin (0.174948)
	tbr (0.154178)
	ctl (0.153069)
	ski (0.146735)
	spl (0.143184)
	pty (0.142714)
	lnt (0.142308)
	cst (0.140036)
	ssp (0.13552)
	lyg (0.133103)
	eru (0.120048)
	clu (0.119646)
	pgl (0.118483)
	ebs (0.118301)
	ecc (0.115035)
	cty (0.10408)
	nbm (0.0993246)
	jej (0.0989218)