Non-Coding RNA Search

Ss1.1-Pig4-TMW8056B21.3

Sequence:


               
               TTCTTCCTCTTTTTTTTTTTTTTTTTTTTTGACTACTTAGAATTTTCACAATTCTAATAA
GATTGTTTCCAAGTTTCTCATGTGCAAGCTTTAAAAGATGCACTCTTGCCATTTTATGTA
CTGGAAGATCATTGGTCAGATTAATACTGTGTCTGACAAAAATGTAAACTGTATAAACTG
AGGAACCTCAGCTAATCAGTATTACTTTGTAGATCACATGCCCACCACATTTCAAACTCA
AACTGCCTCTAGATGTCAAAATCCATTGTTTGAGTTTGTTTGCAGTTCCCTCAGCTTGCT
GGTAATTGTGGTGTTTTGTTTTGTTTTGTTTTGTTTTCAATGCAAATGTGATGTAATATT
CTTATTTTCTTTGGATCAAAGCTGGACTGAAAATTGTAATGTGTAATTATTTTTGTGTTC
TTAATGTTATTTGGTACTCAAGTTGTAAATAACGTCTACTGCTGTTTATTCCAATTTCTA
CTACCTCAGGTGTCCTATAGATTTTTCTTCTACCAAAGTTCACTTTCACAATGAAATTAT
ATTTGCTGTGTGACTATGATTCCTAAGACTTCCAGGGCTTAAGGGCTAACTTCTATTAGC
ACCTTACTGTGTAAACAAATGTTACAAAAAAAATCTCTGGGTTAAGAAAATTTGGCTTAA
ATGTATCCTTTGTTATTTTAAATATATCAAGATATTTTAATTAAAATTTTTACCCCATTG
AACCAATTTTATAGTATTTGTACCTATTTTGGTGTTTTGTCTTTATAGTAAATAAAAGTT
TTTGAACAAAAAAAAAAAAAAAAA

Sequence:

Distiller database | Help | Less info

Blue-coloured subsequences are predicted RNA structures by RNAz


               
               TTCTTCCTCTTTTTTTTTTTTTTTTTTTTTGACTACTTAGAATTTTCACAATTCTAATAA
GATTGTTTCCAAGTTTCTCATGTGCAAGCTTTAAAAGATGCACTCTTGCCATTTTATGTA
CTGGAAGATCATTGGTCAGATTAATACTGTGTCTGACAAAAATGTAAACTGTATAAACTG
AGGAACCTCAGCTAATCAGTATTACTTTGTAGATCACATGCCCACCACATTTCAAACTCA
AACTGCCTCTAGATGTCAAAATCCATTGTTTGAGTTTGTTTGCAGTTCCCTCAGCTTGCT
GGTAATTGTGGTGTTTTGTTTTGTTTTGTTTTGTTTTCAATGCAAATGTGATGTAATATT
CTTATTTTCTTTGGATCAAAGCTGGACTGAAAATTGTAATGTGTAATTATTTTTGTGTTC
TTAATGTTATTTGGTACTCAAGTTGTAAATAACGTCTACTGCTGTTTATTCCAATTTCTA
CTACCTCAGGTGTCCTATAGATTTTTCTTCTACCAAAGTTCACTTTCACAATGAAATTAT
ATTTGCTGTGTGACTATGATTCCTAAGACTTCCAGGGCTTAAGGGCTAACTTCTATTAGC
ACCTTACTGTGTAAACAAATGTTACAAAAAAAATCTCTGGGTTAAGAAAATTTGGCTTAA
ATGTATCCTTTGTTATTTTAAATATATCAAGATATTTTAATTAAAATTTTTACCCCATTG
AACCAATTTTATAGTATTTGTACCTATTTTGGTGTTTTGTCTTTATAGTAAATAAAAGTT
TTTGAACAAAAAAAAAAAAAAAAA

Predicted RNA structure(s): 1 entry(ies)

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Predicted RNA structure(s): 1 entry(ies)

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               12-342, - strand, RNAz p=0.999488

Predicted RNA structure(s): 1 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


               
               12-342, - strand, RNAz p=0.999488

Similar Transcript(s): 6 entry(ies)

More info

Similar Transcript(s): 6 entry(ies)

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               31-304, wz06b06.x1 NCI_CGAP_Brn23 Homo sapiens cDNA clone IMAGE 
(gb|AW050999.1|), blast E-value=0, identity=96.39% 
               

               
               31-311, UI-H-BI3-alv-c-05-0-UI.s1 NCI_CGAP_Sub5 Homo sapiens cDNA clone 
(gb|AW452698.1|), blast E-value=0, identity=96.48% 
               

               
               31-307, UI-E-CL1-afc-f-07-0-UI.r1 UI-E-CL1 Homo sapiens cDNA clone 
(gb|BM703037.1|), blast E-value=0, identity=96.43% 
               

               
               37-311, BE04027A2B09 BE04 Normalized and Subtracted bovine embryonic and 
(gb|CN441829.1|), blast E-value=0, identity=96.01% 
               

               
               31-311, MCF7RNAL18B23TR Human MCF7 breast cancer cell line near full length 
(gb|DN914112.1|), blast E-value=0, identity=96.48% 
               

               
               37-311, LB02326.CR_E13 GC_BGC-23 Bos taurus cDNA clone IMAGE (gb|EE249651.1|), 
blast E-value=0, identity=96.01%

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


               
               31-304, wz06b06.x1 NCI_CGAP_Brn23 Homo sapiens cDNA clone IMAGE 
(gb|AW050999.1|), blast E-value=0, identity=96.39% 
               

               
               31-311, UI-H-BI3-alv-c-05-0-UI.s1 NCI_CGAP_Sub5 Homo sapiens cDNA clone 
(gb|AW452698.1|), blast E-value=0, identity=96.48% 
               

               
               31-307, UI-E-CL1-afc-f-07-0-UI.r1 UI-E-CL1 Homo sapiens cDNA clone 
(gb|BM703037.1|), blast E-value=0, identity=96.43% 
               

               
               37-311, BE04027A2B09 BE04 Normalized and Subtracted bovine embryonic and 
(gb|CN441829.1|), blast E-value=0, identity=96.01% 
               

               
               31-311, MCF7RNAL18B23TR Human MCF7 breast cancer cell line near full length 
(gb|DN914112.1|), blast E-value=0, identity=96.48% 
               

               
               37-311, LB02326.CR_E13 GC_BGC-23 Bos taurus cDNA clone IMAGE (gb|EE249651.1|), 
blast E-value=0, identity=96.01%

Aligned organism(s): 3 entry(ies)

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Aligned organism(s): 3 entry(ies)

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               12-790, gnl|bosTau2|chr20 (12701171-12700390)
               

               
               12-790, gnl|Hg17|chr5 (56226924-56227736)
               

               
               12-790, gnl|Mm7|chr13 (108903743-108902953)

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


               
               12-790, gnl|bosTau2|chr20 (12701171-12700390)
               

               
               12-790, gnl|Hg17|chr5 (56226924-56227736)
               

               
               12-790, gnl|Mm7|chr13 (108903743-108902953)

Expressed library(ies): 13 entry(ies)

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Expressed library(ies): 13 entry(ies)

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               lnt (0.284616)
               

               
               nlu (0.191681)
               

               
               sag (0.182715)
               

               
               mgm (0.180343)
               

               
               ill (0.175593)
               

               
               mcp (0.170648)
               

               
               bfe (0.149858)
               

               
               pty (0.142714)
               

               
               ova (0.129132)
               

               
               ret (0.128733)
               

               
               sug (0.127291)
               

               
               ebs (0.118301)
               

               
               ldo (0.0970026)

Expressed library(ies): 13 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


               
               lnt (0.284616)
               

               
               nlu (0.191681)
               

               
               sag (0.182715)
               

               
               mgm (0.180343)
               

               
               ill (0.175593)
               

               
               mcp (0.170648)
               

               
               bfe (0.149858)
               

               
               pty (0.142714)
               

               
               ova (0.129132)
               

               
               ret (0.128733)
               

               
               sug (0.127291)
               

               
               ebs (0.118301)
               

               
               ldo (0.0970026)

	31-304, wz06b06.x1 NCI_CGAP_Brn23 Homo sapiens cDNA clone IMAGE (gb\|AW050999.1\|), blast E-value=0, identity=96.39%
	31-311, UI-H-BI3-alv-c-05-0-UI.s1 NCI_CGAP_Sub5 Homo sapiens cDNA clone (gb\|AW452698.1\|), blast E-value=0, identity=96.48%
	31-307, UI-E-CL1-afc-f-07-0-UI.r1 UI-E-CL1 Homo sapiens cDNA clone (gb\|BM703037.1\|), blast E-value=0, identity=96.43%
	37-311, BE04027A2B09 BE04 Normalized and Subtracted bovine embryonic and (gb\|CN441829.1\|), blast E-value=0, identity=96.01%
	31-311, MCF7RNAL18B23TR Human MCF7 breast cancer cell line near full length (gb\|DN914112.1\|), blast E-value=0, identity=96.48%
	37-311, LB02326.CR_E13 GC_BGC-23 Bos taurus cDNA clone IMAGE (gb\|EE249651.1\|), blast E-value=0, identity=96.01%

	12-790, gnl\|bosTau2\|chr20 (12701171-12700390)
	12-790, gnl\|Hg17\|chr5 (56226924-56227736)
	12-790, gnl\|Mm7\|chr13 (108903743-108902953)

	lnt (0.284616)
	nlu (0.191681)
	sag (0.182715)
	mgm (0.180343)
	ill (0.175593)
	mcp (0.170648)
	bfe (0.149858)
	pty (0.142714)
	ova (0.129132)
	ret (0.128733)
	sug (0.127291)
	ebs (0.118301)
	ldo (0.0970026)