Non-Coding RNA Search

Ss1.1-Pig4-TMW8046B10.3

Sequence:


               
               GGTCTGCTGACTGTAAATCATTCTAATTTGGCAGGCTTATTTTTGACATTGGAAAGGGCA
GAAAACAATTTGCCCCAATAGTGTAATAGGAAGTATAGCCCAGAGGCTGAAATCCAAAAG
CTGTAAAAAGGAATTCAGTGGAGGGGGCTTCAGAATCCCCATTATTTTGAGTTGCTGTAT
TCAGGATTACCAAAAATCCAATTACATGTAATTTTACATGTTCAGCGTGTTAGAACATAA
CCTCTGTTTTAAAAAGCGTAACAGGCTTCCCGTCAAGAAGCTCTCCTGCCTGCCATGAAG
TAAAAATGATGAAAAGTCATAGCAGGTATGCAGTTTAACTGTGTAGAATCTAGTAGCATT
TAAGCTATTTTTCAGATTGAATATGGACTGTGTGTTTGCATATTGACACTGCCTGTTGTC
CTGTAATTATTAAATTAATGCGTCTATATAGTTGTTCTCCCAGAGGCTGTAGGGCAGTAA
ATTACCAAAACTGCGAAATAAATTCCAGTCTTTGCTGTTTCTGCACATAAGCCCCCTCCC
CACATGATGTGCTGCTTTAGTCCTGCATATGAGCTTGCTTCTCAACAGACCCATCTTGGA
CATTCTCTATGCTTTCTTTTACCAGGGAAGCCAAATCCAGCCATAAACCACCAAAAAGGT
GTGGTAGACATTTGCTCTGATCAGCTAGATGAAAGTGTTACAGTGGATTTCGCTCACTGC
TGTGTTTTATCTGATTGAGTCTTTGACCAGCAATTGGTGCATAATTATTATAGCAAGAGC
AAGAAATGAAACCGTAGCAATTATGTAAATGAATGTGTTGGCCTCGTAACACCTGTTACT
AGTAGACTTCCTGTGAGGAAGTTAGTTCTTTTTTTTGTTTGTTTTTCAATGAAATGCTTT
TGTTTTGAATCTTAATTCTCCAGCATCCTCCCCAAGTGTGCTTATTACTTCATTTGTTTA
ATTTAAATGACCCTTTCTCCTTGTATGTATGAGGTGATCTGGCGGGGTGGGGTAGGTGGT
TGTTTTGTGTTTTCCTTACCTATAGGGCATCCATCGGCCTCAGAGACCTTTCCTTTAGGT
CATATTCCTCAGAAAGTCTTCAATCTTCTTTTTGTTTTTTGTTTTTGTTTTTTTTCTTAA
AGAATATTTTTAAAGCTTAAATTTGTATATTAATTTAGGACTTTATTTAGAAGTATAGGC
TGCCATTGGTGGTAGCAGTATATTCTGAAATGTCTCATAGATATATATTTTTGAATAAAG
ATGGTGTTGTTGAACGAAAAAAAAAAAAAAAAAAAA

Sequence:

Distiller database | Help | Less info

Blue-coloured subsequences are predicted RNA structures by RNAz


               
               GGTCTGCTGACTGTAAATCATTCTAATTTGGCAGGCTTATTTTTGACATTGGAAAGGGCA
GAAAACAATTTGCCCCAATAGTGTAATAGGAAGTATAGCCCAGAGGCTGAAATCCAAAAG
CTGTAAAAAGGAATTCAGTGGAGGGGGCTTCAGAATCCCCATTATTTTGAGTTGCTGTAT
TCAGGATTACCAAAAATCCAATTACATGTAATTTTACATGTTCAGCGTGTTAGAACATAA
CCTCTGTTTTAAAAAGCGTAACAGGCTTCCCGTCAAGAAGCTCTCCTGCCTGCCATGAAG
TAAAAATGATGAAAAGTCATAGCAGGTATGCAGTTTAACTGTGTAGAATCTAGTAGCATT
TAAGCTATTTTTCAGATTGAATATGGACTGTGTGTTTGCATATTGACACTGCCTGTTGTC
CTGTAATTATTAAATTAATGCGTCTATATAGTTGTTCTCCCAGAGGCTGTAGGGCAGTAA
ATTACCAAAACTGCGAAATAAATTCCAGTCTTTGCTGTTTCTGCACATAAGCCCCCTCCC
CACATGATGTGCTGCTTTAGTCCTGCATATGAGCTTGCTTCTCAACAGACCCATCTTGGA
CATTCTCTATGCTTTCTTTTACCAGGGAAGCCAAATCCAGCCATAAACCACCAAAAAGGT
GTGGTAGACATTTGCTCTGATCAGCTAGATGAAAGTGTTACAGTGGATTTCGCTCACTGC
TGTGTTTTATCTGATTGAGTCTTTGACCAGCAATTGGTGCATAATTATTATAGCAAGAGC
AAGAAATGAAACCGTAGCAATTATGTAAATGAATGTGTTGGCCTCGTAACACCTGTTACT
AGTAGACTTCCTGTGAGGAAGTTAGTTCTTTTTTTTGTTTGTTTTTCAATGAAATGCTTT
TGTTTTGAATCTTAATTCTCCAGCATCCTCCCCAAGTGTGCTTATTACTTCATTTGTTTA
ATTTAAATGACCCTTTCTCCTTGTATGTATGAGGTGATCTGGCGGGGTGGGGTAGGTGGT
TGTTTTGTGTTTTCCTTACCTATAGGGCATCCATCGGCCTCAGAGACCTTTCCTTTAGGT
CATATTCCTCAGAAAGTCTTCAATCTTCTTTTTGTTTTTTGTTTTTGTTTTTTTTCTTAA
AGAATATTTTTAAAGCTTAAATTTGTATATTAATTTAGGACTTTATTTAGAAGTATAGGC
TGCCATTGGTGGTAGCAGTATATTCTGAAATGTCTCATAGATATATATTTTTGAATAAAG
ATGGTGTTGTTGAACGAAAAAAAAAAAAAAAAAAAA

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

More info

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

Help | Less info


               
               1-159, + strand, RNAz p=0.963177
               

               
               1155-1275, - strand, RNAz p=0.992385

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

Help | Less info

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


               
               1-159, + strand, RNAz p=0.963177
               

               
               1155-1275, - strand, RNAz p=0.992385

Predicted microRNA(s): 1 entry(ies)

More info

Predicted microRNA(s): 1 entry(ies)

Help | Less info


               
               1202-1299, + strand, RNAmicro p=0.998371

Predicted microRNA(s): 1 entry(ies)

Help | Less info

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


               
               1202-1299, + strand, RNAmicro p=0.998371

Similar Transcript(s): 6 entry(ies)

More info

Similar Transcript(s): 6 entry(ies)

Help | Less info


               
               1155-1272, CR452262 Normalized and Subtracted bovine embryonic and 
(emb|CR452262.2|), blast E-value=0, identity=99.15% 
               

               
               1155-1275, 86324 MARC 1BOV Bos taurus cDNA 5', mRNA sequence (gb|AW446542.1|), 
blast E-value=0, identity=99.17% 
               

               
               1155-1275, 88628 MARC 1BOV Bos taurus cDNA 5', mRNA sequence (gb|AW447270.1|), 
blast E-value=0, identity=99.17% 
               

               
               1155-1272, 101625 MARC 1BOV Bos taurus cDNA 5', mRNA sequence (gb|AW653017.1|), 
blast E-value=0, identity=99.15% 
               

               
               1155-1272, 95861 MARC 1BOV Bos taurus cDNA 5', mRNA sequence (gb|AW658966.1|), 
blast E-value=0, identity=99.15% 
               

               
               1155-1275, EST448208 Rat Gene Index, normalized rat, Rattus norvegicus cDNA 
(gb|BF283617.1|), blast E-value=0, identity=98.35%

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


               
               1155-1272, CR452262 Normalized and Subtracted bovine embryonic and 
(emb|CR452262.2|), blast E-value=0, identity=99.15% 
               

               
               1155-1275, 86324 MARC 1BOV Bos taurus cDNA 5', mRNA sequence (gb|AW446542.1|), 
blast E-value=0, identity=99.17% 
               

               
               1155-1275, 88628 MARC 1BOV Bos taurus cDNA 5', mRNA sequence (gb|AW447270.1|), 
blast E-value=0, identity=99.17% 
               

               
               1155-1272, 101625 MARC 1BOV Bos taurus cDNA 5', mRNA sequence (gb|AW653017.1|), 
blast E-value=0, identity=99.15% 
               

               
               1155-1272, 95861 MARC 1BOV Bos taurus cDNA 5', mRNA sequence (gb|AW658966.1|), 
blast E-value=0, identity=99.15% 
               

               
               1155-1275, EST448208 Rat Gene Index, normalized rat, Rattus norvegicus cDNA 
(gb|BF283617.1|), blast E-value=0, identity=98.35%

Homologous human UTR: 1 entry(ies)

More info

Homologous human UTR: 1 entry(ies)

Help | Less info


               
               3' of AK126484, +

Homologous human UTR: 1 entry(ies)

Help | Less info

Human gene identifier and UTR site,
human gene reading direction


               
               3' of AK126484, +

Aligned organism(s): 3 entry(ies)

More info

Aligned organism(s): 3 entry(ies)

Help | Less info


               
               1-1275, gnl|bosTau2|chr13 (48639123-48637836)
               

               
               1-1275, gnl|Hg17|chr20 (36152914-36154178)
               

               
               1-1275, gnl|Mm7|chr2 (157817073-157818206)

Aligned organism(s): 3 entry(ies)

Help | Less info

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


               
               1-1275, gnl|bosTau2|chr13 (48639123-48637836)
               

               
               1-1275, gnl|Hg17|chr20 (36152914-36154178)
               

               
               1-1275, gnl|Mm7|chr2 (157817073-157818206)

Expressed library(ies): 26 entry(ies)

More info

Expressed library(ies): 26 entry(ies)

Help | Less info


               
               cmu (0.372787)
               

               
               vin (0.332557)
               

               
               liv (0.292569)
               

               
               kid (0.259471)
               

               
               ece (0.229305)
               

               
               hea (0.204499)
               

               
               sto (0.179824)
               

               
               gul (0.177588)
               

               
               fty (0.17584)
               

               
               ton (0.1755)
               

               
               fbs (0.175346)
               

               
               fhi (0.169578)
               

               
               csp (0.161186)
               

               
               bfe (0.149858)
               

               
               ski (0.146735)
               

               
               spl (0.143184)
               

               
               nmm (0.132802)
               

               
               ute (0.132784)
               

               
               ova (0.129132)
               

               
               ret (0.128733)
               

               
               thg (0.126791)
               

               
               tra (0.123092)
               

               
               spc (0.113366)
               

               
               cty (0.10408)
               

               
               jej (0.0989218)
               

               
               ldo (0.0970026)

Expressed library(ies): 26 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


               
               cmu (0.372787)
               

               
               vin (0.332557)
               

               
               liv (0.292569)
               

               
               kid (0.259471)
               

               
               ece (0.229305)
               

               
               hea (0.204499)
               

               
               sto (0.179824)
               

               
               gul (0.177588)
               

               
               fty (0.17584)
               

               
               ton (0.1755)
               

               
               fbs (0.175346)
               

               
               fhi (0.169578)
               

               
               csp (0.161186)
               

               
               bfe (0.149858)
               

               
               ski (0.146735)
               

               
               spl (0.143184)
               

               
               nmm (0.132802)
               

               
               ute (0.132784)
               

               
               ova (0.129132)
               

               
               ret (0.128733)
               

               
               thg (0.126791)
               

               
               tra (0.123092)
               

               
               spc (0.113366)
               

               
               cty (0.10408)
               

               
               jej (0.0989218)
               

               
               ldo (0.0970026)

	1-159, + strand, RNAz p=0.963177
	1155-1275, - strand, RNAz p=0.992385

	1155-1272, CR452262 Normalized and Subtracted bovine embryonic and (emb\|CR452262.2\|), blast E-value=0, identity=99.15%
	1155-1275, 86324 MARC 1BOV Bos taurus cDNA 5', mRNA sequence (gb\|AW446542.1\|), blast E-value=0, identity=99.17%
	1155-1275, 88628 MARC 1BOV Bos taurus cDNA 5', mRNA sequence (gb\|AW447270.1\|), blast E-value=0, identity=99.17%
	1155-1272, 101625 MARC 1BOV Bos taurus cDNA 5', mRNA sequence (gb\|AW653017.1\|), blast E-value=0, identity=99.15%
	1155-1272, 95861 MARC 1BOV Bos taurus cDNA 5', mRNA sequence (gb\|AW658966.1\|), blast E-value=0, identity=99.15%
	1155-1275, EST448208 Rat Gene Index, normalized rat, Rattus norvegicus cDNA (gb\|BF283617.1\|), blast E-value=0, identity=98.35%

	1-1275, gnl\|bosTau2\|chr13 (48639123-48637836)
	1-1275, gnl\|Hg17\|chr20 (36152914-36154178)
	1-1275, gnl\|Mm7\|chr2 (157817073-157818206)

	cmu (0.372787)
	vin (0.332557)
	liv (0.292569)
	kid (0.259471)
	ece (0.229305)
	hea (0.204499)
	sto (0.179824)
	gul (0.177588)
	fty (0.17584)
	ton (0.1755)
	fbs (0.175346)
	fhi (0.169578)
	csp (0.161186)
	bfe (0.149858)
	ski (0.146735)
	spl (0.143184)
	nmm (0.132802)
	ute (0.132784)
	ova (0.129132)
	ret (0.128733)
	thg (0.126791)
	tra (0.123092)
	spc (0.113366)
	cty (0.10408)
	jej (0.0989218)
	ldo (0.0970026)