Non-Coding RNA Search

Ss1.1-rjca10c_n11.5

Sequence:


               
               CGCGGTTGGCCTGTCCGTGGACTTCGCCGTCCATTACGGGGTGGCTTACCGCCTGGCCCC
CGACGCCGACCGCGAAGGCAAGGTCATCTTCTCTCTGAGCCGCATGGGCTCGGCCATCGC
CATGGCGGCGCTGACCACCTTCGTGGCCGGGGCCATGATGATGCCCTCCACAGTCCTGGC
TTACACCCAGCTGGGCACCTTCATGATGCTCATCATGTGCATCAGCTGGACGTTCGCCAC
CTTCTTTTTCCAGTGCCTGTGCCGGTGCCTTGGGCCGCAGGCCGCCTGTGGTCAGATTCC
TTTACCCAGAAGACTCCAGTGCAGTGCCTTCTCCCCTGCTCTGTCCGCAAGTCCGGGTGA
CAAGGGACAGAGCAAGACCCATGCCATGAATGCTTATCGTTTGGATCCCAGGGACCAAAA
GTCTGAAATGGAGCACGAGTTTTATGAGCTTGAACCCCTGGCCTCCCCCAGCTGCTCGGC
CTCTGAGAAGAGCACTTACGAAGAGACCCACATCTGCTCGGAGTTTTTCAACAGCCAGGC
AAAGAGTTTAGGGCTCTCCGTCCGCGCAGCCTACCAGGGCGAGCTCAGCCAGAGCACCAA
ACCCGAAACGAGCTCTGCCCTCTTCCAGCCCTCCCTGGAACAGCACACCGTGTGTCACTT
CTTCTCTCTGAATCAGAGATGTGGCTGCCCAAATGCCTACACACACTTGAAATACGGCCC
GCACGCCTGCCAGCAGATGGGTCCCTGCTTGTGCCACCAGTGCGCTCCACCTACCAGCGG
CCTTGTCCGTGTCCAGAATGGCCTGGTGCCCCTGAAAGCGGCCCGCCAGGTCCCCGAGGG
CTTCGTGCATCCCCTCCCGCACGTGCATCCCTGTCCCTGCCTCCAGGGCAGAGGGAAAGC
GCCCGCGATGCAGAATTCGCTGCCCAGGGGTCTTTTCCTCCACCCGGTGCAGCAGCATCA
GGCCCCAGAAAAAGGCAGTCAGAACTGCGTCCACAGTCTGCAGAGCACCGAAGAGGGTCT
CCCAGAGACGGCAGAGCCCTCATCCTCCTCGTCGCTCTGCAGAGACGCTGCAGCTGTGCA
AAAAGCGTGCTGGGAGCCTGGGACTCACCAAAGGGGACTCTGTAAACACAGGGACCTCGG
GGGCGGGGCAGGCAGCGCAGCGGCTGCAAACCAGGGTTCGGGTTCAGTGAGTCAGAGCGA
CAAGGCGGAAGGGCTGGTGGAGCCGCGCGTGTCACAGACTGATGTCATTGTGAGCTCGGG
ACACTTAAGTCAGAGCGAACCGCAGTTTCTGTTTAACCACTTAGTCGGGGAGGCCGCCTA
TGGGTGCTGCCCAAGCAACCCACCGCGCTGCGGCAGAGTCGGGAGGATTAAGTGCGGTTC
CGTGGATTGTCAAATACCAAACATTGAAGCCAACGTGCCTGCTGTGTCAACACACTCAGA
ACTTTCCGGCGAAAGTTTGTTAATCAAAACACTTTAATAAATATAGTATTAAACCAAAAA

Sequence:

Distiller database | Help | Less info

Blue-coloured subsequences are predicted RNA structures by RNAz


               
               CGCGGTTGGCCTGTCCGTGGACTTCGCCGTCCATTACGGGGTGGCTTACCGCCTGGCCCC
CGACGCCGACCGCGAAGGCAAGGTCATCTTCTCTCTGAGCCGCATGGGCTCGGCCATCGC
CATGGCGGCGCTGACCACCTTCGTGGCCGGGGCCATGATGATGCCCTCCACAGTCCTGGC
TTACACCCAGCTGGGCACCTTCATGATGCTCATCATGTGCATCAGCTGGACGTTCGCCAC
CTTCTTTTTCCAGTGCCTGTGCCGGTGCCTTGGGCCGCAGGCCGCCTGTGGTCAGATTCC
TTTACCCAGAAGACTCCAGTGCAGTGCCTTCTCCCCTGCTCTGTCCGCAAGTCCGGGTGA
CAAGGGACAGAGCAAGACCCATGCCATGAATGCTTATCGTTTGGATCCCAGGGACCAAAA
GTCTGAAATGGAGCACGAGTTTTATGAGCTTGAACCCCTGGCCTCCCCCAGCTGCTCGGC
CTCTGAGAAGAGCACTTACGAAGAGACCCACATCTGCTCGGAGTTTTTCAACAGCCAGGC
AAAGAGTTTAGGGCTCTCCGTCCGCGCAGCCTACCAGGGCGAGCTCAGCCAGAGCACCAA
ACCCGAAACGAGCTCTGCCCTCTTCCAGCCCTCCCTGGAACAGCACACCGTGTGTCACTT
CTTCTCTCTGAATCAGAGATGTGGCTGCCCAAATGCCTACACACACTTGAAATACGGCCC
GCACGCCTGCCAGCAGATGGGTCCCTGCTTGTGCCACCAGTGCGCTCCACCTACCAGCGG
CCTTGTCCGTGTCCAGAATGGCCTGGTGCCCCTGAAAGCGGCCCGCCAGGTCCCCGAGGG
CTTCGTGCATCCCCTCCCGCACGTGCATCCCTGTCCCTGCCTCCAGGGCAGAGGGAAAGC
GCCCGCGATGCAGAATTCGCTGCCCAGGGGTCTTTTCCTCCACCCGGTGCAGCAGCATCA
GGCCCCAGAAAAAGGCAGTCAGAACTGCGTCCACAGTCTGCAGAGCACCGAAGAGGGTCT
CCCAGAGACGGCAGAGCCCTCATCCTCCTCGTCGCTCTGCAGAGACGCTGCAGCTGTGCA
AAAAGCGTGCTGGGAGCCTGGGACTCACCAAAGGGGACTCTGTAAACACAGGGACCTCGG
GGGCGGGGCAGGCAGCGCAGCGGCTGCAAACCAGGGTTCGGGTTCAGTGAGTCAGAGCGA
CAAGGCGGAAGGGCTGGTGGAGCCGCGCGTGTCACAGACTGATGTCATTGTGAGCTCGGG
ACACTTAAGTCAGAGCGAACCGCAGTTTCTGTTTAACCACTTAGTCGGGGAGGCCGCCTA
TGGGTGCTGCCCAAGCAACCCACCGCGCTGCGGCAGAGTCGGGAGGATTAAGTGCGGTTC
CGTGGATTGTCAAATACCAAACATTGAAGCCAACGTGCCTGCTGTGTCAACACACTCAGA
ACTTTCCGGCGAAAGTTTGTTAATCAAAACACTTTAATAAATATAGTATTAAACCAAAAA

Coded protein: 1 entry(ies)

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Coded protein: 1 entry(ies)

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               gi|6453545|emb|CAB61406.1|

Coded protein: 1 entry(ies)

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Protein identifier


               
               gi|6453545|emb|CAB61406.1|

Predicted RNA structure(s): 4 entry(ies)

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Predicted RNA structure(s): 4 entry(ies)

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               41-280, - strand, RNAz p=0.917605
               

               
               178-297, + strand, RNAz p=0.980128
               

               
               835-954, - strand, RNAz p=0.629935
               

               
               1072-1231, + strand, RNAz p=0.882354

Predicted RNA structure(s): 4 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


               
               41-280, - strand, RNAz p=0.917605
               

               
               178-297, + strand, RNAz p=0.980128
               

               
               835-954, - strand, RNAz p=0.629935
               

               
               1072-1231, + strand, RNAz p=0.882354

Aligned organism(s): 21 entry(ies)

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Aligned organism(s): 21 entry(ies)

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               2-1496, gnl|bosTau2|chr16 (14308606-14307118)
               

               
               2-1496, gnl|Hg17|chr1 (219566267-219567735)
               

               
               2-1496, gnl|Mm7|chrUn_random (11684581-11683115)
               


               
               3-297, gnl|bosTau2|chr10 (23755559-23755853)
               

               
               3-297, gnl|canFam2|chr30 (10539915-10540176)
               

               
               3-297, gnl|danRer3|chr17 (32926792-32926531)
               

               
               3-297, gnl|dasNov1|scaffold_18969 (14629-14368)
               

               
               3-297, gnl|echTel1|scaffold_296990 (3574-3313)
               

               
               3-297, gnl|fr1|chrUn (119654788-119655049)
               

               
               3-297, gnl|galGal2|chr5 (2680121-2679860)
               

               
               3-297, gnl|hg17|chr15 (38448668-38448929)
               

               
               3-297, gnl|Hg17|chr15 (38448679-38448973)
               

               
               3-297, gnl|loxAfr1|scaffold_19954 (44136-43875)
               

               
               3-297, gnl|mm7|chr2 (118532565-118532826)
               

               
               3-297, gnl|Mm7|chr2 (118532576-118532870)
               

               
               3-297, gnl|monDom2|scaffold_12 (2009878-2009617)
               

               
               3-297, gnl|panTro1|chr16 (38332271-38332532)
               

               
               3-297, gnl|rheMac2|chr7 (18703197-18703457)
               

               
               3-297, gnl|rn3|chr3 (105192134-105192395)
               

               
               3-297, gnl|tetNig1|chr10 (5769237-5769498)
               

               
               3-297, gnl|xenTro1|scaffold_1383 (173449-173710)

Aligned organism(s): 21 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


               
               2-1496, gnl|bosTau2|chr16 (14308606-14307118)
               

               
               2-1496, gnl|Hg17|chr1 (219566267-219567735)
               

               
               2-1496, gnl|Mm7|chrUn_random (11684581-11683115)
               


               
               3-297, gnl|bosTau2|chr10 (23755559-23755853)
               

               
               3-297, gnl|canFam2|chr30 (10539915-10540176)
               

               
               3-297, gnl|danRer3|chr17 (32926792-32926531)
               

               
               3-297, gnl|dasNov1|scaffold_18969 (14629-14368)
               

               
               3-297, gnl|echTel1|scaffold_296990 (3574-3313)
               

               
               3-297, gnl|fr1|chrUn (119654788-119655049)
               

               
               3-297, gnl|galGal2|chr5 (2680121-2679860)
               

               
               3-297, gnl|hg17|chr15 (38448668-38448929)
               

               
               3-297, gnl|Hg17|chr15 (38448679-38448973)
               

               
               3-297, gnl|loxAfr1|scaffold_19954 (44136-43875)
               

               
               3-297, gnl|mm7|chr2 (118532565-118532826)
               

               
               3-297, gnl|Mm7|chr2 (118532576-118532870)
               

               
               3-297, gnl|monDom2|scaffold_12 (2009878-2009617)
               

               
               3-297, gnl|panTro1|chr16 (38332271-38332532)
               

               
               3-297, gnl|rheMac2|chr7 (18703197-18703457)
               

               
               3-297, gnl|rn3|chr3 (105192134-105192395)
               

               
               3-297, gnl|tetNig1|chr10 (5769237-5769498)
               

               
               3-297, gnl|xenTro1|scaffold_1383 (173449-173710)

Expressed library(ies): 6 entry(ies)

More info

Expressed library(ies): 6 entry(ies)

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               mas (0.210305)
               

               
               duo (0.172801)
               

               
               eli (0.151814)
               

               
               cov (0.132153)
               

               
               jca (0.11396)
               

               
               cty (0.10408)

Expressed library(ies): 6 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


               
               mas (0.210305)
               

               
               duo (0.172801)
               

               
               eli (0.151814)
               

               
               cov (0.132153)
               

               
               jca (0.11396)
               

               
               cty (0.10408)

	41-280, - strand, RNAz p=0.917605
	178-297, + strand, RNAz p=0.980128
	835-954, - strand, RNAz p=0.629935
	1072-1231, + strand, RNAz p=0.882354

	2-1496, gnl\|bosTau2\|chr16 (14308606-14307118)
	2-1496, gnl\|Hg17\|chr1 (219566267-219567735)
	2-1496, gnl\|Mm7\|chrUn_random (11684581-11683115)

	3-297, gnl\|bosTau2\|chr10 (23755559-23755853)
	3-297, gnl\|canFam2\|chr30 (10539915-10540176)
	3-297, gnl\|danRer3\|chr17 (32926792-32926531)
	3-297, gnl\|dasNov1\|scaffold_18969 (14629-14368)
	3-297, gnl\|echTel1\|scaffold_296990 (3574-3313)
	3-297, gnl\|fr1\|chrUn (119654788-119655049)
	3-297, gnl\|galGal2\|chr5 (2680121-2679860)
	3-297, gnl\|hg17\|chr15 (38448668-38448929)
	3-297, gnl\|Hg17\|chr15 (38448679-38448973)
	3-297, gnl\|loxAfr1\|scaffold_19954 (44136-43875)
	3-297, gnl\|mm7\|chr2 (118532565-118532826)
	3-297, gnl\|Mm7\|chr2 (118532576-118532870)
	3-297, gnl\|monDom2\|scaffold_12 (2009878-2009617)
	3-297, gnl\|panTro1\|chr16 (38332271-38332532)
	3-297, gnl\|rheMac2\|chr7 (18703197-18703457)
	3-297, gnl\|rn3\|chr3 (105192134-105192395)
	3-297, gnl\|tetNig1\|chr10 (5769237-5769498)
	3-297, gnl\|xenTro1\|scaffold_1383 (173449-173710)

	mas (0.210305)
	duo (0.172801)
	eli (0.151814)
	cov (0.132153)
	jca (0.11396)
	cty (0.10408)