Non-Coding RNA Search

Ss1.1-Tra1-TCH01E090031.5

Sequence:


               
               TTTGCCAGAATTCCAGGCAGCATGGACCTCACTCTTCTGTGGGTGCTTCTGCCACTGGTC
ACCGTGGCCTGGGGACAGTACGGTGACTACGGGTACCCATACCAGCAGTACCACGACTAT
AGCGACGACGGGTGGGTGAATCTGAACCGGCAGGGCTTCAGCTACCAGTGTCCCCATGGG
CAGGTGGTGGTGGCTGTGAGGAGCATCTTCAACAAGAAGGAAGGATCTGACAGACAGTGG
AACTACGCCTGCATGCCCACGCCGCAGAGCCTCGGGGAGCCTTCGGAGTGCTGGTGGGAG
GAGATCAACAGGGCTGGAATGGAATGGTACCAGACATGCTCCAACAATGGACTGGTGGCA
GGGTTCCAGAGCCGCTACTTCGAATCAGTGCTGGACCGTGAGTGGCAGTTTTACTGCTGT
CGCTACAGCAAAAGATGCCCATATTCCTGCTGGATGACGACAGAATATCCAGGCCACTAT
GGTGAGGAAATGGACATGATTTCCTACAATTATGATTACTATATGCGAGGAGCAACAACC
ACTTTCTCTGCAGTAGAAAGGGATCGCCAGTGGAAATTCATAATGTGCCGGATGACTGAC
TACGACTGTGAATTTGCAAATGTTTAGATTTGCAACCTACCAATCTGGGTGAAGGGAAGA
GGGCCAGGAGACCAGAGGATGTCCATATAAGTGAACATCAGTTGGGACTCCTAAGTGATT
TCTGCTGCTCTCTTTTCTTCTCCCCGAGCTGGTGGGTAGTTGCAATGCCAGCTTTCTGGG
CCTTTCTGACTGGTATCACACTTATAATAAAATCTACAATTTCTCACTTTCAACATGTTC
CATAGCAACCATTTTATATGAGTGACAATGGCTCTCTTGCACACCATATAGTCTGTGTGC
CTGCTCATAGCCTGAAAAAAACCCTGGTTCTTGGAACACCTGTCGCAGCCTTTCTGCTGC
TTTTACTACCAAATGAGCTGCCTGATGCTTAGCAATGTCTGTGAAGAAGTTCAGTGGAGT
GAAGTGAAGGGGCAGCAGTTGAGAAGGTGGCAGTTAAGGTTCTCTCAGCTACATCTGTTT
GAGTGACATCTGGGGTCCCCCCAGAGAGCAGACCTTCTGCCTCAAGGGGACATGCTTCCA
TTCTGTCTTTCCACATAAGCCACATTTGCCTGGAAGTTTAAGTGCAGAGCTCTGCACTCC
ACGAGGGAGAAGACAGGGAGGTTGAGAGATGGAAAGTTTTGGGGATTGAAAGACTGAGGA
TCAGAAGAATTTCCAAATTGGAAGATTATTAGCATACCTAGTAATGAAAATGAGCACAGG
AACCAGAAAAGCCTCCTGTCTCAAGTAAGACAAAAACAAGAAGGAGAGAGGTCAGAGAAT
GGGACTCAAATTAGGAACTTGGAAGGGAAAGGGAGAAGGGTCAGGTTGCATTGGGAAATC
GAAAAAGTGCTTTGATTCACTGGCACCTGGGAACACTGGCACATGCCCTGTTGATGTGAG
AGCTGCTGGCAGACTTACTTGGATTGGCCTCAATGTTCTGTATGGGAAATCTGCCGTGGG
GGCATCTACTTCTCTTCTCTGTGTAGTTGAAGGGCATCTTTCTCAGAGGTGGCACTGTCT
CTCCTCTTCCTGTGATGTCTCTCTCTCTAGCCCCTTGTACTCACTTCATCATAAAAGGAA
TAAAAATATTAACATTCACTATGCAAAAAAAAAAAA

Sequence:

Distiller database | Help | Less info

Blue-coloured subsequences are predicted RNA structures by RNAz


               
               TTTGCCAGAATTCCAGGCAGCATGGACCTCACTCTTCTGTGGGTGCTTCTGCCACTGGTC
ACCGTGGCCTGGGGACAGTACGGTGACTACGGGTACCCATACCAGCAGTACCACGACTAT
AGCGACGACGGGTGGGTGAATCTGAACCGGCAGGGCTTCAGCTACCAGTGTCCCCATGGG
CAGGTGGTGGTGGCTGTGAGGAGCATCTTCAACAAGAAGGAAGGATCTGACAGACAGTGG
AACTACGCCTGCATGCCCACGCCGCAGAGCCTCGGGGAGCCTTCGGAGTGCTGGTGGGAG
GAGATCAACAGGGCTGGAATGGAATGGTACCAGACATGCTCCAACAATGGACTGGTGGCA
GGGTTCCAGAGCCGCTACTTCGAATCAGTGCTGGACCGTGAGTGGCAGTTTTACTGCTGT
CGCTACAGCAAAAGATGCCCATATTCCTGCTGGATGACGACAGAATATCCAGGCCACTAT
GGTGAGGAAATGGACATGATTTCCTACAATTATGATTACTATATGCGAGGAGCAACAACC
ACTTTCTCTGCAGTAGAAAGGGATCGCCAGTGGAAATTCATAATGTGCCGGATGACTGAC
TACGACTGTGAATTTGCAAATGTTTAGATTTGCAACCTACCAATCTGGGTGAAGGGAAGA
GGGCCAGGAGACCAGAGGATGTCCATATAAGTGAACATCAGTTGGGACTCCTAAGTGATT
TCTGCTGCTCTCTTTTCTTCTCCCCGAGCTGGTGGGTAGTTGCAATGCCAGCTTTCTGGG
CCTTTCTGACTGGTATCACACTTATAATAAAATCTACAATTTCTCACTTTCAACATGTTC
CATAGCAACCATTTTATATGAGTGACAATGGCTCTCTTGCACACCATATAGTCTGTGTGC
CTGCTCATAGCCTGAAAAAAACCCTGGTTCTTGGAACACCTGTCGCAGCCTTTCTGCTGC
TTTTACTACCAAATGAGCTGCCTGATGCTTAGCAATGTCTGTGAAGAAGTTCAGTGGAGT
GAAGTGAAGGGGCAGCAGTTGAGAAGGTGGCAGTTAAGGTTCTCTCAGCTACATCTGTTT
GAGTGACATCTGGGGTCCCCCCAGAGAGCAGACCTTCTGCCTCAAGGGGACATGCTTCCA
TTCTGTCTTTCCACATAAGCCACATTTGCCTGGAAGTTTAAGTGCAGAGCTCTGCACTCC
ACGAGGGAGAAGACAGGGAGGTTGAGAGATGGAAAGTTTTGGGGATTGAAAGACTGAGGA
TCAGAAGAATTTCCAAATTGGAAGATTATTAGCATACCTAGTAATGAAAATGAGCACAGG
AACCAGAAAAGCCTCCTGTCTCAAGTAAGACAAAAACAAGAAGGAGAGAGGTCAGAGAAT
GGGACTCAAATTAGGAACTTGGAAGGGAAAGGGAGAAGGGTCAGGTTGCATTGGGAAATC
GAAAAAGTGCTTTGATTCACTGGCACCTGGGAACACTGGCACATGCCCTGTTGATGTGAG
AGCTGCTGGCAGACTTACTTGGATTGGCCTCAATGTTCTGTATGGGAAATCTGCCGTGGG
GGCATCTACTTCTCTTCTCTGTGTAGTTGAAGGGCATCTTTCTCAGAGGTGGCACTGTCT
CTCCTCTTCCTGTGATGTCTCTCTCTCTAGCCCCTTGTACTCACTTCATCATAAAAGGAA
TAAAAATATTAACATTCACTATGCAAAAAAAAAAAA

Coded protein: 1 entry(ies)

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Coded protein: 1 entry(ies)

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               gi|61816862|ref|XP_581169.1|

Coded protein: 1 entry(ies)

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Protein identifier


               
               gi|61816862|ref|XP_581169.1|

Predicted RNA structure(s): 3 entry(ies)

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Predicted RNA structure(s): 3 entry(ies)

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               1-117, + strand, RNAz p=0.938129
               

               
               638-750, - strand, RNAz p=0.999191
               

               
               1124-1239, - strand, RNAz p=0.986434

Predicted RNA structure(s): 3 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


               
               1-117, + strand, RNAz p=0.938129
               

               
               638-750, - strand, RNAz p=0.999191
               

               
               1124-1239, - strand, RNAz p=0.986434

Aligned organism(s): 6 entry(ies)

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Aligned organism(s): 6 entry(ies)

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               1-336, gnl|bosTau2|chr16 (24394608-24394943)
               

               
               1-336, gnl|Hg17|chr1 (165430091-165429756)
               

               
               1-336, gnl|Mm7|chr1 (164764529-164764865)
               


               
               559-1703, gnl|bosTau2|chr16 (24430146-24431276)
               

               
               559-1703, gnl|Hg17|chr1 (165397513-165396362)
               

               
               559-1703, gnl|Mm7|chr1 (164790987-164792086)

Aligned organism(s): 6 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


               
               1-336, gnl|bosTau2|chr16 (24394608-24394943)
               

               
               1-336, gnl|Hg17|chr1 (165430091-165429756)
               

               
               1-336, gnl|Mm7|chr1 (164764529-164764865)
               


               
               559-1703, gnl|bosTau2|chr16 (24430146-24431276)
               

               
               559-1703, gnl|Hg17|chr1 (165397513-165396362)
               

               
               559-1703, gnl|Mm7|chr1 (164790987-164792086)

Expressed library(ies): 36 entry(ies)

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Expressed library(ies): 36 entry(ies)

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               jca (1.48148)
               

               
               hea (1.02249)
               

               
               sto (0.899119)
               

               
               csk (0.70373)
               

               
               nca (0.684369)
               

               
               che (0.68157)
               

               
               cly (0.603209)
               

               
               nco (0.485201)
               

               
               fat (0.442282)
               

               
               amn (0.417711)
               

               
               cov (0.396458)
               

               
               eep (0.367692)
               

               
               ton (0.351)
               

               
               duo (0.345602)
               

               
               cut (0.339847)
               

               
               eje (0.296501)
               

               
               ski (0.29347)
               

               
               ldo (0.291008)
               

               
               cga (0.279096)
               

               
               ese (0.253004)
               

               
               bla (0.248694)
               

               
               med (0.232504)
               

               
               aor (0.195274)
               

               
               col (0.195008)
               

               
               nep (0.183925)
               

               
               sin (0.174948)
               

               
               nje (0.16592)
               

               
               cje (0.165235)
               

               
               tbr (0.154178)
               

               
               bfe (0.149858)
               

               
               liv (0.146284)
               

               
               lin (0.145603)
               

               
               hlv (0.139256)
               

               
               ret (0.128733)
               

               
               sug (0.127291)
               

               
               eru (0.120048)

Expressed library(ies): 36 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


               
               jca (1.48148)
               

               
               hea (1.02249)
               

               
               sto (0.899119)
               

               
               csk (0.70373)
               

               
               nca (0.684369)
               

               
               che (0.68157)
               

               
               cly (0.603209)
               

               
               nco (0.485201)
               

               
               fat (0.442282)
               

               
               amn (0.417711)
               

               
               cov (0.396458)
               

               
               eep (0.367692)
               

               
               ton (0.351)
               

               
               duo (0.345602)
               

               
               cut (0.339847)
               

               
               eje (0.296501)
               

               
               ski (0.29347)
               

               
               ldo (0.291008)
               

               
               cga (0.279096)
               

               
               ese (0.253004)
               

               
               bla (0.248694)
               

               
               med (0.232504)
               

               
               aor (0.195274)
               

               
               col (0.195008)
               

               
               nep (0.183925)
               

               
               sin (0.174948)
               

               
               nje (0.16592)
               

               
               cje (0.165235)
               

               
               tbr (0.154178)
               

               
               bfe (0.149858)
               

               
               liv (0.146284)
               

               
               lin (0.145603)
               

               
               hlv (0.139256)
               

               
               ret (0.128733)
               

               
               sug (0.127291)
               

               
               eru (0.120048)

	1-117, + strand, RNAz p=0.938129
	638-750, - strand, RNAz p=0.999191
	1124-1239, - strand, RNAz p=0.986434

	1-336, gnl\|bosTau2\|chr16 (24394608-24394943)
	1-336, gnl\|Hg17\|chr1 (165430091-165429756)
	1-336, gnl\|Mm7\|chr1 (164764529-164764865)

	559-1703, gnl\|bosTau2\|chr16 (24430146-24431276)
	559-1703, gnl\|Hg17\|chr1 (165397513-165396362)
	559-1703, gnl\|Mm7\|chr1 (164790987-164792086)

	jca (1.48148)
	hea (1.02249)
	sto (0.899119)
	csk (0.70373)
	nca (0.684369)
	che (0.68157)
	cly (0.603209)
	nco (0.485201)
	fat (0.442282)
	amn (0.417711)
	cov (0.396458)
	eep (0.367692)
	ton (0.351)
	duo (0.345602)
	cut (0.339847)
	eje (0.296501)
	ski (0.29347)
	ldo (0.291008)
	cga (0.279096)
	ese (0.253004)
	bla (0.248694)
	med (0.232504)
	aor (0.195274)
	col (0.195008)
	nep (0.183925)
	sin (0.174948)
	nje (0.16592)
	cje (0.165235)
	tbr (0.154178)
	bfe (0.149858)
	liv (0.146284)
	lin (0.145603)
	hlv (0.139256)
	ret (0.128733)
	sug (0.127291)
	eru (0.120048)