Non-Coding RNA Search

Ss1.1-Pig4-TMW8031E02.5

Sequence:


               
               TCTAGGTCCCAGGAGCAGAGTGGGGACAGGACCATGCCCTCCTCAGAACTGGAGCTGCCA
CAGGAGCAGCTGCTGAGGCAGTGGCTTCAGGCTCCCACTTCTGCCATCAGCCCCAGTGTC
ATCTTCCCATGCTCTTGTGGCTCTGAACTAAGGGAGAAGGATTAAGGGGTATGTCTGGCT
GAATTTTTCTCCCCTCACTCCCTCCTCCTTCATTTCCCTAAGGATTAAAGCTCCTAGCCT
CTTCCTCTTCAGAGCAGAAAAATCTGCATGGGATTAGCTCCCCATCCTGTTTTCCATTCC
GGGGTTTCCCAAGGCTGGGAAAGAAGGGCTGAAGGGCTAAATCTTTGACCTCAGAAAGTA
GGGCCACCTATTCCCAGAAGGAGCTTCTTTACCTCTTAGCCCTGAGGCTTCCTCTTTCCC
CATCTTCCGTGCTTCCAGAGAACAACTTTATCCCCACGGCCACCCCTTATTCTCCCCATT
ACCGCATGAAGAGGCAGTTATTGCTTTAATCTTTCATTGCAACCAGTGGGCTCCCTTTTG
ACGGCTCCCAGCACTTTCCCCTGGATGCCGTACACAGTCCATCATGTGCAGGTGGGCTGG
GGAAGGAGGCAAACTGGGCCTCAGCTGCAGATCTCCTGGAGCAGCGGCATCATGGTGGAC
AGTCCCTGGATGTTCTGGATTTGGTACCAGTATTCTTTGTTAATGCTTCGGAGCTCAGCC
AATAGGCCCAGCAGCTTTGCATAGAGAAACCTTTGGAAGAAGTACTGGGGTCACCAGGGA
AAGAGGAGGGAAATAAGGCAGCCGAGAGTCTTTTCCTGAGGCCCTGATCCCCTGAACTGC
CTGTCAGTGAAGCTAGGTCTGAACACTAGGGAAAATATGCTGTGGTATGACAAATGCATC
AAAAGTTCCAAAGGTTCCCAAAGGAGCCACTATCTGACATAGACTTCTCTCACCATGCCA
TTTTCCTTGAACCCAAAGCGCTGAGGGTCAAGTGTGGAAAAAGCCCCAGACTTGGCCAGA
TCTTCAACTGTATGGAATCTGAGGATCTGGCCTAGAGCAGGTTCTAGAAGATGAGCGTGT
TCTATTGTATACCGCATCCCTCTTCTGGCCAAACTGGCTCATTGAGAAATAAGCAAGGAC
AGAAGTGGAGCATACCTCAGAGCCTGGATAGATCATGGACTGTTGAACCAGAGACTGGCT
TTGGCCCTGAAACTGAATGACCCTAACTTCAAGGGGAATGAAGAATGAAAGGAATTGGAC
CAATGGAGAGGAGGGGAAGGGCCAAGGAAAGAGAGTGAATAAGACTCTCGAAAGGCTGCT
TTAGTCTGGACTGGTGAGGTGATGGATGTCATCAATCTCAGGAATGCTATTATTCAGAGC
CTGTGAGCTACTACTTTGCATCTCTACTGAATAAAAAAATCTGGAAAAAGTGAGATGAAA
TAGAAGTAGGAGCAATTTGGATATTGGGGGTCTACGAACCTCCCCCCCAAGGGGGTGGGG
GCCTTGGTTTCCCAAAAGAAAGGACAATAAAAGCACTCGTCCTGAGTT

Sequence:

Distiller database | Help | Less info

Blue-coloured subsequences are predicted RNA structures by RNAz


               
               TCTAGGTCCCAGGAGCAGAGTGGGGACAGGACCATGCCCTCCTCAGAACTGGAGCTGCCA
CAGGAGCAGCTGCTGAGGCAGTGGCTTCAGGCTCCCACTTCTGCCATCAGCCCCAGTGTC
ATCTTCCCATGCTCTTGTGGCTCTGAACTAAGGGAGAAGGATTAAGGGGTATGTCTGGCT
GAATTTTTCTCCCCTCACTCCCTCCTCCTTCATTTCCCTAAGGATTAAAGCTCCTAGCCT
CTTCCTCTTCAGAGCAGAAAAATCTGCATGGGATTAGCTCCCCATCCTGTTTTCCATTCC
GGGGTTTCCCAAGGCTGGGAAAGAAGGGCTGAAGGGCTAAATCTTTGACCTCAGAAAGTA
GGGCCACCTATTCCCAGAAGGAGCTTCTTTACCTCTTAGCCCTGAGGCTTCCTCTTTCCC
CATCTTCCGTGCTTCCAGAGAACAACTTTATCCCCACGGCCACCCCTTATTCTCCCCATT
ACCGCATGAAGAGGCAGTTATTGCTTTAATCTTTCATTGCAACCAGTGGGCTCCCTTTTG
ACGGCTCCCAGCACTTTCCCCTGGATGCCGTACACAGTCCATCATGTGCAGGTGGGCTGG
GGAAGGAGGCAAACTGGGCCTCAGCTGCAGATCTCCTGGAGCAGCGGCATCATGGTGGAC
AGTCCCTGGATGTTCTGGATTTGGTACCAGTATTCTTTGTTAATGCTTCGGAGCTCAGCC
AATAGGCCCAGCAGCTTTGCATAGAGAAACCTTTGGAAGAAGTACTGGGGTCACCAGGGA
AAGAGGAGGGAAATAAGGCAGCCGAGAGTCTTTTCCTGAGGCCCTGATCCCCTGAACTGC
CTGTCAGTGAAGCTAGGTCTGAACACTAGGGAAAATATGCTGTGGTATGACAAATGCATC
AAAAGTTCCAAAGGTTCCCAAAGGAGCCACTATCTGACATAGACTTCTCTCACCATGCCA
TTTTCCTTGAACCCAAAGCGCTGAGGGTCAAGTGTGGAAAAAGCCCCAGACTTGGCCAGA
TCTTCAACTGTATGGAATCTGAGGATCTGGCCTAGAGCAGGTTCTAGAAGATGAGCGTGT
TCTATTGTATACCGCATCCCTCTTCTGGCCAAACTGGCTCATTGAGAAATAAGCAAGGAC
AGAAGTGGAGCATACCTCAGAGCCTGGATAGATCATGGACTGTTGAACCAGAGACTGGCT
TTGGCCCTGAAACTGAATGACCCTAACTTCAAGGGGAATGAAGAATGAAAGGAATTGGAC
CAATGGAGAGGAGGGGAAGGGCCAAGGAAAGAGAGTGAATAAGACTCTCGAAAGGCTGCT
TTAGTCTGGACTGGTGAGGTGATGGATGTCATCAATCTCAGGAATGCTATTATTCAGAGC
CTGTGAGCTACTACTTTGCATCTCTACTGAATAAAAAAATCTGGAAAAAGTGAGATGAAA
TAGAAGTAGGAGCAATTTGGATATTGGGGGTCTACGAACCTCCCCCCCAAGGGGGTGGGG
GCCTTGGTTTCCCAAAAGAAAGGACAATAAAAGCACTCGTCCTGAGTT

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

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

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               1-465, - strand, RNAz p=0.994943
               

               
               1017-1129, + strand, RNAz p=0.78528

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


               
               1-465, - strand, RNAz p=0.994943
               

               
               1017-1129, + strand, RNAz p=0.78528

Similar Transcript(s): 6 entry(ies)

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Similar Transcript(s): 6 entry(ies)

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               2-465, BP152929 full-length enriched swine cDNA library, adult ovary Sus 
(dbj|BP152929.1|), blast E-value=0, identity=100% 
               

               
               13-465, 4085426 BARC 9BOV Bos taurus cDNA clone 9BOV2_A03 5', mRNA sequence 
(gb|CK970099.1|), blast E-value=0, identity=89.45% 
               

               
               13-465, LB02726.CR_I23 GC_BGC-27 Bos taurus cDNA clone IMAGE (gb|DV893300.1|), 
blast E-value=0, identity=89.23% 
               

               
               113-465, 1450374 MARC 11BOV Bos taurus cDNA 5', mRNA sequence (gb|DY454005.1|), 
blast E-value=0, identity=89.58% 
               

               
               45-465, 1528561 MARC 11BOV Bos taurus cDNA 5', mRNA sequence (gb|DY454380.1|), 
blast E-value=0, identity=88.89% 
               

               
               13-454, LB02535.CR_K23 GC_BGC-25 Bos taurus cDNA clone IMAGE (gb|EE341089.1|), 
blast E-value=0, identity=88.76%

Similar Transcript(s): 6 entry(ies)

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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


               
               2-465, BP152929 full-length enriched swine cDNA library, adult ovary Sus 
(dbj|BP152929.1|), blast E-value=0, identity=100% 
               

               
               13-465, 4085426 BARC 9BOV Bos taurus cDNA clone 9BOV2_A03 5', mRNA sequence 
(gb|CK970099.1|), blast E-value=0, identity=89.45% 
               

               
               13-465, LB02726.CR_I23 GC_BGC-27 Bos taurus cDNA clone IMAGE (gb|DV893300.1|), 
blast E-value=0, identity=89.23% 
               

               
               113-465, 1450374 MARC 11BOV Bos taurus cDNA 5', mRNA sequence (gb|DY454005.1|), 
blast E-value=0, identity=89.58% 
               

               
               45-465, 1528561 MARC 11BOV Bos taurus cDNA 5', mRNA sequence (gb|DY454380.1|), 
blast E-value=0, identity=88.89% 
               

               
               13-454, LB02535.CR_K23 GC_BGC-25 Bos taurus cDNA clone IMAGE (gb|EE341089.1|), 
blast E-value=0, identity=88.76%

Homologous human UTR: 1 entry(ies)

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Homologous human UTR: 1 entry(ies)

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               3' of NM_032174, +

Homologous human UTR: 1 entry(ies)

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Human gene identifier and UTR site,
human gene reading direction


               
               3' of NM_032174, +

Aligned organism(s): 6 entry(ies)

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Aligned organism(s): 6 entry(ies)

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               1-866, gnl|bosTau2|chr3 (7573306-7572451)
               

               
               1-866, gnl|Hg17|chr1 (158012060-158012905)
               

               
               1-866, gnl|Mm7|chr1 (171189507-171188577)
               


               
               1017-1462, gnl|bosTau2|chr3 (7572366-7571927)
               

               
               1017-1462, gnl|Hg17|chr1 (158013058-158013510)
               

               
               1017-1462, gnl|Mm7|chr1 (171188442-171187990)

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


               
               1-866, gnl|bosTau2|chr3 (7573306-7572451)
               

               
               1-866, gnl|Hg17|chr1 (158012060-158012905)
               

               
               1-866, gnl|Mm7|chr1 (171189507-171188577)
               


               
               1017-1462, gnl|bosTau2|chr3 (7572366-7571927)
               

               
               1017-1462, gnl|Hg17|chr1 (158013058-158013510)
               

               
               1017-1462, gnl|Mm7|chr1 (171188442-171187990)

Expressed library(ies): 14 entry(ies)

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Expressed library(ies): 14 entry(ies)

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               ece (0.229305)
               

               
               nlu (0.191681)
               

               
               cje (0.165235)
               

               
               cki (0.165235)
               

               
               cli (0.152812)
               

               
               hyp (0.142837)
               

               
               ste (0.135208)
               

               
               pla (0.133672)
               

               
               lyg (0.133103)
               

               
               kid (0.129735)
               

               
               ebs (0.118301)
               

               
               ecc (0.115035)
               

               
               nbm (0.0993246)
               

               
               jej (0.0989218)

Expressed library(ies): 14 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


               
               ece (0.229305)
               

               
               nlu (0.191681)
               

               
               cje (0.165235)
               

               
               cki (0.165235)
               

               
               cli (0.152812)
               

               
               hyp (0.142837)
               

               
               ste (0.135208)
               

               
               pla (0.133672)
               

               
               lyg (0.133103)
               

               
               kid (0.129735)
               

               
               ebs (0.118301)
               

               
               ecc (0.115035)
               

               
               nbm (0.0993246)
               

               
               jej (0.0989218)

	1-465, - strand, RNAz p=0.994943
	1017-1129, + strand, RNAz p=0.78528

	2-465, BP152929 full-length enriched swine cDNA library, adult ovary Sus (dbj\|BP152929.1\|), blast E-value=0, identity=100%
	13-465, 4085426 BARC 9BOV Bos taurus cDNA clone 9BOV2_A03 5', mRNA sequence (gb\|CK970099.1\|), blast E-value=0, identity=89.45%
	13-465, LB02726.CR_I23 GC_BGC-27 Bos taurus cDNA clone IMAGE (gb\|DV893300.1\|), blast E-value=0, identity=89.23%
	113-465, 1450374 MARC 11BOV Bos taurus cDNA 5', mRNA sequence (gb\|DY454005.1\|), blast E-value=0, identity=89.58%
	45-465, 1528561 MARC 11BOV Bos taurus cDNA 5', mRNA sequence (gb\|DY454380.1\|), blast E-value=0, identity=88.89%
	13-454, LB02535.CR_K23 GC_BGC-25 Bos taurus cDNA clone IMAGE (gb\|EE341089.1\|), blast E-value=0, identity=88.76%

	1-866, gnl\|bosTau2\|chr3 (7573306-7572451)
	1-866, gnl\|Hg17\|chr1 (158012060-158012905)
	1-866, gnl\|Mm7\|chr1 (171189507-171188577)

	1017-1462, gnl\|bosTau2\|chr3 (7572366-7571927)
	1017-1462, gnl\|Hg17\|chr1 (158013058-158013510)
	1017-1462, gnl\|Mm7\|chr1 (171188442-171187990)

	ece (0.229305)
	nlu (0.191681)
	cje (0.165235)
	cki (0.165235)
	cli (0.152812)
	hyp (0.142837)
	ste (0.135208)
	pla (0.133672)
	lyg (0.133103)
	kid (0.129735)
	ebs (0.118301)
	ecc (0.115035)
	nbm (0.0993246)
	jej (0.0989218)