Non-Coding RNA Search

Ss1.1-Pig4-TMW8054K16.5

Sequence:


               
               AGCACTCGACTTCCTGTAGTTAGAGGAGGGGGGGGTGGGGGGCTGGCTCCTCGGTGCGAT
TGTGTGGGGCGGCCTGGGGCGGCCCCGGAGCGGCTGACCCTCTGCCTGCGGGGACGGGAG
TCGCGAGGCGGCAGCCATGGCGGGGTCGGAGAGCCAGCTCAAGAAAATGGTGTCCAAGTA
CAAATACAGAGACCTAACTGTACGTGAAACTGTCAATGTTATTACTTTATACAAAGATCT
CAAACCTGTATTGGATTCATATGTTTTTAATGATGGCAGTTCAAGGGAACTAATGAACCT
CACTGGAACAATTCCTGTGCCTTATAGAGGTAATACGTATAATATTCCAATATGCCTGTG
GCTGCTGGACACATACCCATATAATCCCCCTATCTGTTTTGTTAAGCCTACTAGTTCAAT
GACTATTAAAACAGGAAAGCATGTGGATGCTAATGGAAAGATATATCTTCCTTATCTACA
TGAGTGGAAACACCCACAGTCAGATTTGTTGGGGCTTATTCAGGTCATGATTGTGGTGTT
TGGAGATGAACCTCCGGTCTTCTCTCGTCCTACTCTTTCAGCATCCTATCCACCATACCA
GGCAACAGGGCCACCAAATACTTCCTACATGCCAGGCATGCCAAGTGGGATTTCAGCGTA
CCCATCCGGATACCCTCCCAATCCCAGTGGTTACCCAGGCTGTCCTTACCCACCTGGCGG
TCAGTATCCTGCCACAACAAGTTCCCAGTACCCTTCACAGCCTCCTGTAACCACTGTTGG
TCCCAGTAGAGATGGCACAATCAGCGAGGACACCATCCGAGCCTCTCTCATCTCGGCGGT
CAGTGACAAATTGAGATGGCGGATGAAGGAGGAGATGGATCGTGCCCAGGCAGAGCTCAA
TGCCTTGAAACGCACAGAGGAAGACCTGAAAAAGGGTCACCAGAAACTGGAAGAGATGGT
TACCCGTTTAGATCAGGAAGTAGCTGAGGTTGATAAAAACATAGAACTTTTGAGAAAGAA
GGATGAAGAACTCAGTTCTGCCCTGGAGAAGATGGAAAATCAGTCTGAAAACAATGATAT
TGATGAAGTTATCATTCCCACAGCCCCACTATACAAACAGATCCTAAATCTTTATGCAGA
GGAAAATGCTATTGAAGACACGATCTTTTACCTGGGAGAAGCCCTGAGGCGGGGAGTAAT
AGACCTAGACGTCTTCCTGAAGCATGTACGTCTTCTGTCCCGTAAACAGTTCCAGCTGAG
GGCACTAATGCAAAAAGCAAGAAAGACTGCCGGTCTCAGTGACCTCTACTGACTTCTCAG
ATACCAGCTGGAGATTAAGCTCTTCTTAAAGCATTCATTTCTTCTCTTCCTTTCTCTAAT
ATCAGTAGGTGCCCAGAATAAGTTATTGCAGTTTATCATTCAAGTGTAAAATATTTTGAA
TCAATAATATATTTTCTGTTTTCTTTTGGTAAAGACTGGCTTTTATTAATGCACTTTCTA
TCCTCTGTAAACTCTTTTTGTGCTGAATGTTGGGACTGACTATGCTAAATAAAATTTGTT
GCATAAAAAAAAAAAAAAAAAAAA

Sequence:

Distiller database | Help | Less info

Blue-coloured subsequences are predicted RNA structures by RNAz


               
               AGCACTCGACTTCCTGTAGTTAGAGGAGGGGGGGGTGGGGGGCTGGCTCCTCGGTGCGAT
TGTGTGGGGCGGCCTGGGGCGGCCCCGGAGCGGCTGACCCTCTGCCTGCGGGGACGGGAG
TCGCGAGGCGGCAGCCATGGCGGGGTCGGAGAGCCAGCTCAAGAAAATGGTGTCCAAGTA
CAAATACAGAGACCTAACTGTACGTGAAACTGTCAATGTTATTACTTTATACAAAGATCT
CAAACCTGTATTGGATTCATATGTTTTTAATGATGGCAGTTCAAGGGAACTAATGAACCT
CACTGGAACAATTCCTGTGCCTTATAGAGGTAATACGTATAATATTCCAATATGCCTGTG
GCTGCTGGACACATACCCATATAATCCCCCTATCTGTTTTGTTAAGCCTACTAGTTCAAT
GACTATTAAAACAGGAAAGCATGTGGATGCTAATGGAAAGATATATCTTCCTTATCTACA
TGAGTGGAAACACCCACAGTCAGATTTGTTGGGGCTTATTCAGGTCATGATTGTGGTGTT
TGGAGATGAACCTCCGGTCTTCTCTCGTCCTACTCTTTCAGCATCCTATCCACCATACCA
GGCAACAGGGCCACCAAATACTTCCTACATGCCAGGCATGCCAAGTGGGATTTCAGCGTA
CCCATCCGGATACCCTCCCAATCCCAGTGGTTACCCAGGCTGTCCTTACCCACCTGGCGG
TCAGTATCCTGCCACAACAAGTTCCCAGTACCCTTCACAGCCTCCTGTAACCACTGTTGG
TCCCAGTAGAGATGGCACAATCAGCGAGGACACCATCCGAGCCTCTCTCATCTCGGCGGT
CAGTGACAAATTGAGATGGCGGATGAAGGAGGAGATGGATCGTGCCCAGGCAGAGCTCAA
TGCCTTGAAACGCACAGAGGAAGACCTGAAAAAGGGTCACCAGAAACTGGAAGAGATGGT
TACCCGTTTAGATCAGGAAGTAGCTGAGGTTGATAAAAACATAGAACTTTTGAGAAAGAA
GGATGAAGAACTCAGTTCTGCCCTGGAGAAGATGGAAAATCAGTCTGAAAACAATGATAT
TGATGAAGTTATCATTCCCACAGCCCCACTATACAAACAGATCCTAAATCTTTATGCAGA
GGAAAATGCTATTGAAGACACGATCTTTTACCTGGGAGAAGCCCTGAGGCGGGGAGTAAT
AGACCTAGACGTCTTCCTGAAGCATGTACGTCTTCTGTCCCGTAAACAGTTCCAGCTGAG
GGCACTAATGCAAAAAGCAAGAAAGACTGCCGGTCTCAGTGACCTCTACTGACTTCTCAG
ATACCAGCTGGAGATTAAGCTCTTCTTAAAGCATTCATTTCTTCTCTTCCTTTCTCTAAT
ATCAGTAGGTGCCCAGAATAAGTTATTGCAGTTTATCATTCAAGTGTAAAATATTTTGAA
TCAATAATATATTTTCTGTTTTCTTTTGGTAAAGACTGGCTTTTATTAATGCACTTTCTA
TCCTCTGTAAACTCTTTTTGTGCTGAATGTTGGGACTGACTATGCTAAATAAAATTTGTT
GCATAAAAAAAAAAAAAAAAAAAA

Coded protein: 1 entry(ies)

More info

Coded protein: 1 entry(ies)

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               gi|24987690|pdb|1M4Q|A

Coded protein: 1 entry(ies)

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Protein identifier


               
               gi|24987690|pdb|1M4Q|A

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

More info

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

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               422-541, - strand, RNAz p=0.978328
               

               
               582-940, - strand, RNAz p=0.854007

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


               
               422-541, - strand, RNAz p=0.978328
               

               
               582-940, - strand, RNAz p=0.854007

Aligned organism(s): 5 entry(ies)

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Aligned organism(s): 5 entry(ies)

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               62-1575, gnl|bosTau2|chr22 (39285825-39284312)
               

               
               62-1575, gnl|Mm7|chr15 (63056765-63058044)
               


               
               1329-1554, gnl|bosTau2|chr18 (1042310-1042531)
               

               
               1329-1554, gnl|Hg17|chr11 (18458652-18458457)
               

               
               1329-1554, gnl|Mm7|chr7 (43065781-43065572)

Aligned organism(s): 5 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


               
               62-1575, gnl|bosTau2|chr22 (39285825-39284312)
               

               
               62-1575, gnl|Mm7|chr15 (63056765-63058044)
               


               
               1329-1554, gnl|bosTau2|chr18 (1042310-1042531)
               

               
               1329-1554, gnl|Hg17|chr11 (18458652-18458457)
               

               
               1329-1554, gnl|Mm7|chr7 (43065781-43065572)

Expressed library(ies): 41 entry(ies)

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Expressed library(ies): 41 entry(ies)

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               spl (0.715922)
               

               
               cte (0.58548)
               

               
               ret (0.514933)
               

               
               sug (0.509165)
               

               
               ski (0.440205)
               

               
               tes (0.415628)
               

               
               hea (0.408998)
               

               
               col (0.390016)
               

               
               tra (0.369276)
               

               
               tbr (0.308356)
               

               
               cag (0.302389)
               

               
               cst (0.280073)
               

               
               ssp (0.271039)
               

               
               bla (0.248694)
               

               
               cbe (0.239234)
               

               
               med (0.232504)
               

               
               mgp (0.230681)
               

               
               fcc (0.197785)
               

               
               aor (0.195274)
               

               
               nep (0.183925)
               

               
               sto (0.179824)
               

               
               ill (0.175593)
               

               
               fbs (0.175346)
               

               
               sin (0.174948)
               

               
               rec (0.17307)
               

               
               duo (0.172801)
               

               
               fhi (0.169578)
               

               
               nje (0.16592)
               

               
               cki (0.165235)
               

               
               eli (0.151814)
               

               
               isp (0.150376)
               

               
               fat (0.147427)
               

               
               csk (0.140746)
               

               
               che (0.136314)
               

               
               ute (0.132784)
               

               
               ese (0.126502)
               

               
               eep (0.122564)
               

               
               pgl (0.118483)
               

               
               cbl (0.114797)
               

               
               spc (0.113366)
               

               
               ldo (0.0970026)

Expressed library(ies): 41 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


               
               spl (0.715922)
               

               
               cte (0.58548)
               

               
               ret (0.514933)
               

               
               sug (0.509165)
               

               
               ski (0.440205)
               

               
               tes (0.415628)
               

               
               hea (0.408998)
               

               
               col (0.390016)
               

               
               tra (0.369276)
               

               
               tbr (0.308356)
               

               
               cag (0.302389)
               

               
               cst (0.280073)
               

               
               ssp (0.271039)
               

               
               bla (0.248694)
               

               
               cbe (0.239234)
               

               
               med (0.232504)
               

               
               mgp (0.230681)
               

               
               fcc (0.197785)
               

               
               aor (0.195274)
               

               
               nep (0.183925)
               

               
               sto (0.179824)
               

               
               ill (0.175593)
               

               
               fbs (0.175346)
               

               
               sin (0.174948)
               

               
               rec (0.17307)
               

               
               duo (0.172801)
               

               
               fhi (0.169578)
               

               
               nje (0.16592)
               

               
               cki (0.165235)
               

               
               eli (0.151814)
               

               
               isp (0.150376)
               

               
               fat (0.147427)
               

               
               csk (0.140746)
               

               
               che (0.136314)
               

               
               ute (0.132784)
               

               
               ese (0.126502)
               

               
               eep (0.122564)
               

               
               pgl (0.118483)
               

               
               cbl (0.114797)
               

               
               spc (0.113366)
               

               
               ldo (0.0970026)

	422-541, - strand, RNAz p=0.978328
	582-940, - strand, RNAz p=0.854007

	62-1575, gnl\|bosTau2\|chr22 (39285825-39284312)
	62-1575, gnl\|Mm7\|chr15 (63056765-63058044)

	1329-1554, gnl\|bosTau2\|chr18 (1042310-1042531)
	1329-1554, gnl\|Hg17\|chr11 (18458652-18458457)
	1329-1554, gnl\|Mm7\|chr7 (43065781-43065572)

	spl (0.715922)
	cte (0.58548)
	ret (0.514933)
	sug (0.509165)
	ski (0.440205)
	tes (0.415628)
	hea (0.408998)
	col (0.390016)
	tra (0.369276)
	tbr (0.308356)
	cag (0.302389)
	cst (0.280073)
	ssp (0.271039)
	bla (0.248694)
	cbe (0.239234)
	med (0.232504)
	mgp (0.230681)
	fcc (0.197785)
	aor (0.195274)
	nep (0.183925)
	sto (0.179824)
	ill (0.175593)
	fbs (0.175346)
	sin (0.174948)
	rec (0.17307)
	duo (0.172801)
	fhi (0.169578)
	nje (0.16592)
	cki (0.165235)
	eli (0.151814)
	isp (0.150376)
	fat (0.147427)
	csk (0.140746)
	che (0.136314)
	ute (0.132784)
	ese (0.126502)
	eep (0.122564)
	pgl (0.118483)
	cbl (0.114797)
	spc (0.113366)
	ldo (0.0970026)