Non-Coding RNA Search

Ss1.1-Pig4-TMW8059O12.3.5

Sequence:


               
               TTTAGCTGACCGCATGGCTTAAACAGGATAGTAGTGGGCAAGATGAAATGCCAGAATTAG
AACCAATCATAAAGAAGCAAAACCCATTTCAAAATTAAAAAAAACAAAAAAAAACAAAAC
AGCATTACTGTTTCTAATCCCAAGAAATCATTTTATTCTAAACACTAGCAAAACTCTTCT
CCCCATATGTACAAGGTGGATGGCTGATTTTAACCTGAAGTTCTAAATCCACAGATTGAG
AGCTAGTGTAGAATTGTCTGTGTTTATTGTTTTTATGAGTAAATACATGCATTGTCATAA
TAAAATGCATTTCAGAGAATATGCATTTTACCTTTGGGAATATGTTAATTTCAGGCAGCA
TTCCCTATGGGAAAGGTGATACCAGCTCTGATATGCAAAGCATATGATAATTTATCATTC
TAACTTCAACATATAATAGGGATTGTGACCTGATATTTGGAGATGTAAATATTGCTCAGC
ATACTAATCCTGATGGAACATAGCATTGTAGTGGACTTTTTTTTAAAAAATTAAAAAGAA
AAAACAAAATATACAAATTGTGTTTTGGTGAGAAAAGGCCGCAACTGACAGAGGAGAAGT
CAAGTGTGCGGACAGGCAGACTTCTAACAAACGGAGGCCAGTGGGACTCCTCTTGAGGAG
CCAAGGAGTACTTTGGAACAGTTAAAATCTATTGCTTTAAATTGGAAGATGCTGGAGGCA
CTGGGATGTGATATGCCCCTCTCTCTCCCAATCAGCCTGTTGATGTTTCAGCAGGGAAAG
ATGTGTTAGTTGCTCACTAGAGTTTATGTCTTATATTAAATTGTATACAATTTTTATTCT
AACCACTAACTAGGTAGTATGCCCCTTCAGAACAAGCAGTGTCTCTCTCTTTTTTTTTTT
ATTTCTCCTTCCGTTTCTTAATCAAGTATTGTGCAGATTTGTTCAACTTTGTAAATATGG
ACATCACTTTTTTTTTTTTTTTCTTTTTTCTTTTTCTCGAGGAAACACTCGTATCAGCTT
TCTGGGGTTTTCAGGGAGACAGCTGTCTGCACTCCCTGTAGAAGTCCAGCAGTGATTGTG
CACATTAAGACATGTGCTTTTTATTTCTTAGCAGGATGTTTTTATCTCTGTACATAAAGT
AGAAACCAAAAGCTAGGGAAACAGATACTCTCTATACCATCATGCCACACATTAATGTTT
TTAAAGCATTTTTAAGTTACTAAAACCAAAAGTCTGATTTTTTTTTTTTTTTAAGTTGCA
ATATGTTTTGGGTGTTTTCCTTTTTTAACTTTGCGGTTAAGAGAAATGGATATTGTGTTA
ATCTTGCAGAATGTTTGCAGGACTGACTATCAAACTAGACGACTTCCATTTATACCCCAC
CGTGTCAGTTCAAGCATCAAAATACCTTGCATCTGAGGCAGACTTCCTACATCAGGGACA
GGTATCTGTGTGTCATTATACAAAGCAGTTCGAGGGGGTTAAACTACGTAGTAAAAAAAT
AAAATAAATAGTACTTAGTGTAAAATAATTTTATAAATGATCTTTTGTACTTTAGGACAT
TAAATTGTACAACTTTTGTATATATAAAAGCTTAGGAACTTTCTGTTTAGCAGGAAGGCA
ACACATTCCTACACTTTTAATGTATATGTTTGTTATAATGTCCATGTAAACATGCCCTAT
GTTTGTGCCTTTTAATTAGTTTGTCTCAATAAACAAAATGTAGAGAAAAATATGTAGCTA
TGACTTTGTTACAACTGTCCCTATCCACAGTACCAAGATGGTTTGTTTTTAATATGTAGA
GCATTATGTGTGGACTACTGGAAGGACTCGTGTAGGGAAGGCCCATGCCTTGGTCCTGCT
GAGGCCTGGATTGGGGAGGTAGTGGCCACATTTGGAGGAAGCCCGTATTTCCTGACAAGC
AGCCCCAGGACCGGGTTCTGGCTCTGCCTGCTGGGACCTGCCGTCCCTCTCTGGCTGGGC
TGGCAGTCGCAGTCCTCCAAGATTGAGACAGCCTAGGCTTCCTCCACAGTGGCCCAAGGA
GCAGTCCTCAGTGGGGGCAGGTGTGGACCCTACCCACAGGCTAGAGTGTGGTCGTCAGAA
CCCTGAAAGTAT

Sequence:

Distiller database | Help | Less info

Blue-coloured subsequences are predicted RNA structures by RNAz


               
               TTTAGCTGACCGCATGGCTTAAACAGGATAGTAGTGGGCAAGATGAAATGCCAGAATTAG
AACCAATCATAAAGAAGCAAAACCCATTTCAAAATTAAAAAAAACAAAAAAAAACAAAAC
AGCATTACTGTTTCTAATCCCAAGAAATCATTTTATTCTAAACACTAGCAAAACTCTTCT
CCCCATATGTACAAGGTGGATGGCTGATTTTAACCTGAAGTTCTAAATCCACAGATTGAG
AGCTAGTGTAGAATTGTCTGTGTTTATTGTTTTTATGAGTAAATACATGCATTGTCATAA
TAAAATGCATTTCAGAGAATATGCATTTTACCTTTGGGAATATGTTAATTTCAGGCAGCA
TTCCCTATGGGAAAGGTGATACCAGCTCTGATATGCAAAGCATATGATAATTTATCATTC
TAACTTCAACATATAATAGGGATTGTGACCTGATATTTGGAGATGTAAATATTGCTCAGC
ATACTAATCCTGATGGAACATAGCATTGTAGTGGACTTTTTTTTAAAAAATTAAAAAGAA
AAAACAAAATATACAAATTGTGTTTTGGTGAGAAAAGGCCGCAACTGACAGAGGAGAAGT
CAAGTGTGCGGACAGGCAGACTTCTAACAAACGGAGGCCAGTGGGACTCCTCTTGAGGAG
CCAAGGAGTACTTTGGAACAGTTAAAATCTATTGCTTTAAATTGGAAGATGCTGGAGGCA
CTGGGATGTGATATGCCCCTCTCTCTCCCAATCAGCCTGTTGATGTTTCAGCAGGGAAAG
ATGTGTTAGTTGCTCACTAGAGTTTATGTCTTATATTAAATTGTATACAATTTTTATTCT
AACCACTAACTAGGTAGTATGCCCCTTCAGAACAAGCAGTGTCTCTCTCTTTTTTTTTTT
ATTTCTCCTTCCGTTTCTTAATCAAGTATTGTGCAGATTTGTTCAACTTTGTAAATATGG
ACATCACTTTTTTTTTTTTTTTCTTTTTTCTTTTTCTCGAGGAAACACTCGTATCAGCTT
TCTGGGGTTTTCAGGGAGACAGCTGTCTGCACTCCCTGTAGAAGTCCAGCAGTGATTGTG
CACATTAAGACATGTGCTTTTTATTTCTTAGCAGGATGTTTTTATCTCTGTACATAAAGT
AGAAACCAAAAGCTAGGGAAACAGATACTCTCTATACCATCATGCCACACATTAATGTTT
TTAAAGCATTTTTAAGTTACTAAAACCAAAAGTCTGATTTTTTTTTTTTTTTAAGTTGCA
ATATGTTTTGGGTGTTTTCCTTTTTTAACTTTGCGGTTAAGAGAAATGGATATTGTGTTA
ATCTTGCAGAATGTTTGCAGGACTGACTATCAAACTAGACGACTTCCATTTATACCCCAC
CGTGTCAGTTCAAGCATCAAAATACCTTGCATCTGAGGCAGACTTCCTACATCAGGGACA
GGTATCTGTGTGTCATTATACAAAGCAGTTCGAGGGGGTTAAACTACGTAGTAAAAAAAT
AAAATAAATAGTACTTAGTGTAAAATAATTTTATAAATGATCTTTTGTACTTTAGGACAT
TAAATTGTACAACTTTTGTATATATAAAAGCTTAGGAACTTTCTGTTTAGCAGGAAGGCA
ACACATTCCTACACTTTTAATGTATATGTTTGTTATAATGTCCATGTAAACATGCCCTAT
GTTTGTGCCTTTTAATTAGTTTGTCTCAATAAACAAAATGTAGAGAAAAATATGTAGCTA
TGACTTTGTTACAACTGTCCCTATCCACAGTACCAAGATGGTTTGTTTTTAATATGTAGA
GCATTATGTGTGGACTACTGGAAGGACTCGTGTAGGGAAGGCCCATGCCTTGGTCCTGCT
GAGGCCTGGATTGGGGAGGTAGTGGCCACATTTGGAGGAAGCCCGTATTTCCTGACAAGC
AGCCCCAGGACCGGGTTCTGGCTCTGCCTGCTGGGACCTGCCGTCCCTCTCTGGCTGGGC
TGGCAGTCGCAGTCCTCCAAGATTGAGACAGCCTAGGCTTCCTCCACAGTGGCCCAAGGA
GCAGTCCTCAGTGGGGGCAGGTGTGGACCCTACCCACAGGCTAGAGTGTGGTCGTCAGAA
CCCTGAAAGTAT

Predicted RNA structure(s): 6 entry(ies)

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Predicted RNA structure(s): 6 entry(ies)

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               147-466, - strand, RNAz p=0.931359
               

               
               507-619, - strand, RNAz p=0.600562
               

               
               660-856, - strand, RNAz p=0.983658
               

               
               1015-1134, - strand, RNAz p=0.899295
               

               
               1556-1675, - strand, RNAz p=0.909926
               

               
               1994-2112, - strand, RNAz p=0.637098

Predicted RNA structure(s): 6 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


               
               147-466, - strand, RNAz p=0.931359
               

               
               507-619, - strand, RNAz p=0.600562
               

               
               660-856, - strand, RNAz p=0.983658
               

               
               1015-1134, - strand, RNAz p=0.899295
               

               
               1556-1675, - strand, RNAz p=0.909926
               

               
               1994-2112, - strand, RNAz p=0.637098

Predicted microRNA(s): 1 entry(ies)

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Predicted microRNA(s): 1 entry(ies)

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               296-416, + strand, RNAmicro p=0.996895

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


               
               296-416, + strand, RNAmicro p=0.996895

Similar Transcript(s): 12 entry(ies)

More info

Similar Transcript(s): 12 entry(ies)

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               147-466, LB01612.CR.1_M22 GC_BGC-16 Bos taurus cDNA clone IMAGE 
(gb|DT810676.1|), blast E-value=0, identity=97.19% 
               

               
               147-466, LB01615.CR_P18 GC_BGC-16 Bos taurus cDNA clone IMAGE (gb|DT811685.1|), 
blast E-value=0, identity=97.19% 
               

               
               147-466, LB02529.CR_N13 GC_BGC-25 Bos taurus cDNA clone IMAGE (gb|DV876213.1|), 
blast E-value=0, identity=97.19% 
               

               
               147-466, LB02724.CR_A09 GC_BGC-27 Bos taurus cDNA clone IMAGE (gb|DV892546.1|), 
blast E-value=0, identity=97.19% 
               

               
               147-466, LB02921.CR_F08 GC_BGC-29 Bos taurus cDNA clone IMAGE (gb|DV920211.1|), 
blast E-value=0, identity=97.19% 
               

               
               147-466, LB02989.CR_N04 GC_BGC-29 Bos taurus cDNA clone IMAGE (gb|EE366931.1|), 
blast E-value=0, identity=97.19% 
               

               
               1556-1675, BY798633 Homo sapiens eye Homo sapiens cDNA clone HE3692.seq 5', 
(dbj|BY798633.2|), blast E-value=0, identity=100% 
               

               
               1556-1675, DA570728 HEMBA1 Homo sapiens cDNA clone HEMBA1005323 5', mRNA 
(dbj|DA570728.1|), blast E-value=0, identity=100% 
               

               
               1556-1675, AJ689659 KN261 Bos taurus cDNA clone KN261-051_K20, mRNA sequence 
(emb|AJ689659.1|), blast E-value=0, identity=100% 
               

               
               1556-1675, 4086620 BARC 9BOV Bos taurus cDNA clone 9BOV3_B21 3', mRNA sequence 
(gb|CK971005.1|), blast E-value=0, identity=100% 
               

               
               1556-1675, 1470914 MARC 7BOV Bos taurus cDNA 3', mRNA sequence (gb|DT889958.1|), 
blast E-value=0, identity=100% 
               

               
               1556-1675, POSM0605006_B22F porcine skeletal muscle cDNA library (PoSM) Sus 
(gb|DV897288.1|), blast E-value=0, identity=100%

Similar Transcript(s): 12 entry(ies)

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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


               
               147-466, LB01612.CR.1_M22 GC_BGC-16 Bos taurus cDNA clone IMAGE 
(gb|DT810676.1|), blast E-value=0, identity=97.19% 
               

               
               147-466, LB01615.CR_P18 GC_BGC-16 Bos taurus cDNA clone IMAGE (gb|DT811685.1|), 
blast E-value=0, identity=97.19% 
               

               
               147-466, LB02529.CR_N13 GC_BGC-25 Bos taurus cDNA clone IMAGE (gb|DV876213.1|), 
blast E-value=0, identity=97.19% 
               

               
               147-466, LB02724.CR_A09 GC_BGC-27 Bos taurus cDNA clone IMAGE (gb|DV892546.1|), 
blast E-value=0, identity=97.19% 
               

               
               147-466, LB02921.CR_F08 GC_BGC-29 Bos taurus cDNA clone IMAGE (gb|DV920211.1|), 
blast E-value=0, identity=97.19% 
               

               
               147-466, LB02989.CR_N04 GC_BGC-29 Bos taurus cDNA clone IMAGE (gb|EE366931.1|), 
blast E-value=0, identity=97.19% 
               

               
               1556-1675, BY798633 Homo sapiens eye Homo sapiens cDNA clone HE3692.seq 5', 
(dbj|BY798633.2|), blast E-value=0, identity=100% 
               

               
               1556-1675, DA570728 HEMBA1 Homo sapiens cDNA clone HEMBA1005323 5', mRNA 
(dbj|DA570728.1|), blast E-value=0, identity=100% 
               

               
               1556-1675, AJ689659 KN261 Bos taurus cDNA clone KN261-051_K20, mRNA sequence 
(emb|AJ689659.1|), blast E-value=0, identity=100% 
               

               
               1556-1675, 4086620 BARC 9BOV Bos taurus cDNA clone 9BOV3_B21 3', mRNA sequence 
(gb|CK971005.1|), blast E-value=0, identity=100% 
               

               
               1556-1675, 1470914 MARC 7BOV Bos taurus cDNA 3', mRNA sequence (gb|DT889958.1|), 
blast E-value=0, identity=100% 
               

               
               1556-1675, POSM0605006_B22F porcine skeletal muscle cDNA library (PoSM) Sus 
(gb|DV897288.1|), 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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               73-2112, gnl|bosTau2|chr19 (4203854-4201822)
               

               
               73-2112, gnl|Hg17|chr17 (53406562-53404558)
               

               
               73-2112, gnl|Mm7|chr11 (88151994-88153981)

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


               
               73-2112, gnl|bosTau2|chr19 (4203854-4201822)
               

               
               73-2112, gnl|Hg17|chr17 (53406562-53404558)
               

               
               73-2112, gnl|Mm7|chr11 (88151994-88153981)

Expressed library(ies): 21 entry(ies)

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Expressed library(ies): 21 entry(ies)

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               sme (0.610874)
               

               
               sin (0.524843)
               

               
               pro (0.512033)
               

               
               cbr (0.511902)
               

               
               cbl (0.45919)
               

               
               amn (0.417711)
               

               
               spl (0.286369)
               

               
               ebs (0.236602)
               

               
               ece (0.229305)
               

               
               aor (0.195274)
               

               
               fbs (0.175346)
               

               
               eye (0.170503)
               

               
               csp (0.161186)
               

               
               ski (0.146735)
               

               
               cst (0.140036)
               

               
               hlv (0.139256)
               

               
               ova (0.129132)
               

               
               eru (0.120048)
               

               
               pgl (0.118483)
               

               
               spc (0.113366)
               

               
               jej (0.0989218)

Expressed library(ies): 21 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


               
               sme (0.610874)
               

               
               sin (0.524843)
               

               
               pro (0.512033)
               

               
               cbr (0.511902)
               

               
               cbl (0.45919)
               

               
               amn (0.417711)
               

               
               spl (0.286369)
               

               
               ebs (0.236602)
               

               
               ece (0.229305)
               

               
               aor (0.195274)
               

               
               fbs (0.175346)
               

               
               eye (0.170503)
               

               
               csp (0.161186)
               

               
               ski (0.146735)
               

               
               cst (0.140036)
               

               
               hlv (0.139256)
               

               
               ova (0.129132)
               

               
               eru (0.120048)
               

               
               pgl (0.118483)
               

               
               spc (0.113366)
               

               
               jej (0.0989218)

	147-466, - strand, RNAz p=0.931359
	507-619, - strand, RNAz p=0.600562
	660-856, - strand, RNAz p=0.983658
	1015-1134, - strand, RNAz p=0.899295
	1556-1675, - strand, RNAz p=0.909926
	1994-2112, - strand, RNAz p=0.637098

	147-466, LB01612.CR.1_M22 GC_BGC-16 Bos taurus cDNA clone IMAGE (gb\|DT810676.1\|), blast E-value=0, identity=97.19%
	147-466, LB01615.CR_P18 GC_BGC-16 Bos taurus cDNA clone IMAGE (gb\|DT811685.1\|), blast E-value=0, identity=97.19%
	147-466, LB02529.CR_N13 GC_BGC-25 Bos taurus cDNA clone IMAGE (gb\|DV876213.1\|), blast E-value=0, identity=97.19%
	147-466, LB02724.CR_A09 GC_BGC-27 Bos taurus cDNA clone IMAGE (gb\|DV892546.1\|), blast E-value=0, identity=97.19%
	147-466, LB02921.CR_F08 GC_BGC-29 Bos taurus cDNA clone IMAGE (gb\|DV920211.1\|), blast E-value=0, identity=97.19%
	147-466, LB02989.CR_N04 GC_BGC-29 Bos taurus cDNA clone IMAGE (gb\|EE366931.1\|), blast E-value=0, identity=97.19%
	1556-1675, BY798633 Homo sapiens eye Homo sapiens cDNA clone HE3692.seq 5', (dbj\|BY798633.2\|), blast E-value=0, identity=100%
	1556-1675, DA570728 HEMBA1 Homo sapiens cDNA clone HEMBA1005323 5', mRNA (dbj\|DA570728.1\|), blast E-value=0, identity=100%
	1556-1675, AJ689659 KN261 Bos taurus cDNA clone KN261-051_K20, mRNA sequence (emb\|AJ689659.1\|), blast E-value=0, identity=100%
	1556-1675, 4086620 BARC 9BOV Bos taurus cDNA clone 9BOV3_B21 3', mRNA sequence (gb\|CK971005.1\|), blast E-value=0, identity=100%
	1556-1675, 1470914 MARC 7BOV Bos taurus cDNA 3', mRNA sequence (gb\|DT889958.1\|), blast E-value=0, identity=100%
	1556-1675, POSM0605006_B22F porcine skeletal muscle cDNA library (PoSM) Sus (gb\|DV897288.1\|), blast E-value=0, identity=100%

	73-2112, gnl\|bosTau2\|chr19 (4203854-4201822)
	73-2112, gnl\|Hg17\|chr17 (53406562-53404558)
	73-2112, gnl\|Mm7\|chr11 (88151994-88153981)

	sme (0.610874)
	sin (0.524843)
	pro (0.512033)
	cbr (0.511902)
	cbl (0.45919)
	amn (0.417711)
	spl (0.286369)
	ebs (0.236602)
	ece (0.229305)
	aor (0.195274)
	fbs (0.175346)
	eye (0.170503)
	csp (0.161186)
	ski (0.146735)
	cst (0.140036)
	hlv (0.139256)
	ova (0.129132)
	eru (0.120048)
	pgl (0.118483)
	spc (0.113366)
	jej (0.0989218)