Non-Coding RNA Search

Ss1.1-Lym1-jns41_A06.f.5

Sequence:


               
               CAGACATTCACTGTTCTGCACATTGCTGTTTATCCCATGGATGCATTGAGTAGTGCCTTT
TTTAGCTTCGCATTGCTTTGTTACCCTATGCTTTGTGTTCTCTAAATACATTGCCCAGTT
CTGAAAATGCTCAGCATATAAAAAGGGCTTCAGCATCGACTGAGACTACTTTTGTTCATC
TCAGGGAACTTTCAATACTCAAGAATGAATTCAATTAAAGGCATTTAGTGTTCAAAGAAG
ACAAACTGTACAAGACCAATTCATTCCCTATTGGATTCCTTTTCATCTTCCCTCCCCCTT
CACGATCCACTGTGGCCTCCTCATAGGGATAGGGCAAGGAAATCACAGAAGGCTAACAGC
AAGAAAAAGAAAAAGGATTGAGATTTAACCACTAAGGGGGCAAAAAGGCATAATGAAGAA
ATCAAATTATTCATACCTAATGGAAATATCTAGGGTTTTTTTCTTTTGAGACTATCATAT
GTTCATAGCTTTAATATTTTATTTCTTTTTCACGATTGAAACCTGTACCTGGCACTGTTC
AGGCAGCTGATGGTGAAATACACCTGTCCTTTGAACAGGGCTGTTACTGTGCTGTTAACA
TGAATAGGCCATGGACACATTTTCATCTTTATTACCCAGCCTGTTCTATACTTAATATAA
AATTGCTAGAAAGAAAAAATAAATTGGTACCAGATTTTTCTGGGCAAATCTAATGATTCA
GCCTACAGGACTGATGAAATGACTGTGGAAGCTTTTCTGTCTGAAAGAAGGTGTTGGACA
TTCAAATGTCTTTATGTATTGTACATCATATGAAATGTATATCAGTTGCTAATGGGAATT
TCTACATGTATGCTCACAGAAGCAATTTATTTAAATAATGCTATAGGCAGTGTACATACC
AACTAGTTATTAAGCTACTACACAGGAAAAAAAAGTGAACAAAGTAATCATTTGCGCCAG
TTAGTCACAATGCACACAGTGTGGTATTTGGTTCTTAAAAGAGTTGTTTTCATGTGGCTG
TTGTTGGGAGTTTCTATAACCATGGAAGGGGTGTAGGAAGAGTTATGTATAGTTAGTTGT
TACCTCTACAGGTTTGAGAGTTTCCCCATCAGACATTATCAATATACCAATGTTTTACAA
ATTGAGTGAGAGAGGGTTATTGTTCATATTTGATGAAAGAAAATCCAAATAAGGCCCACC
TAGAAATAGATATTTTATTATATATGTGCTATAGATATATCTACATAGTACAGATAGACA
TGTGTGATGCATATATACAATGTTATATATGTGAGTCTATGTGTATACACAGTGAGTCTC
TAATATACACACACTAGATTTGTGTTATGCTAACATCTTCAGGAGCTTCCCTGTGGAGCC
CTCGGAGATAAGACCATTTTAGAATAAAGAAGTTCTTCTGAGACTTCAGTTACTAACCTG
CTTTAAAAGGATCTACTTTATAACTGAATCCTATGTTGTTCATATCTAGAATTACAGTAA
GGGTCTAGTGTATTATCCAGATCT

Sequence:

Distiller database | Help | Less info

Blue-coloured subsequences are predicted RNA structures by RNAz


               
               CAGACATTCACTGTTCTGCACATTGCTGTTTATCCCATGGATGCATTGAGTAGTGCCTTT
TTTAGCTTCGCATTGCTTTGTTACCCTATGCTTTGTGTTCTCTAAATACATTGCCCAGTT
CTGAAAATGCTCAGCATATAAAAAGGGCTTCAGCATCGACTGAGACTACTTTTGTTCATC
TCAGGGAACTTTCAATACTCAAGAATGAATTCAATTAAAGGCATTTAGTGTTCAAAGAAG
ACAAACTGTACAAGACCAATTCATTCCCTATTGGATTCCTTTTCATCTTCCCTCCCCCTT
CACGATCCACTGTGGCCTCCTCATAGGGATAGGGCAAGGAAATCACAGAAGGCTAACAGC
AAGAAAAAGAAAAAGGATTGAGATTTAACCACTAAGGGGGCAAAAAGGCATAATGAAGAA
ATCAAATTATTCATACCTAATGGAAATATCTAGGGTTTTTTTCTTTTGAGACTATCATAT
GTTCATAGCTTTAATATTTTATTTCTTTTTCACGATTGAAACCTGTACCTGGCACTGTTC
AGGCAGCTGATGGTGAAATACACCTGTCCTTTGAACAGGGCTGTTACTGTGCTGTTAACA
TGAATAGGCCATGGACACATTTTCATCTTTATTACCCAGCCTGTTCTATACTTAATATAA
AATTGCTAGAAAGAAAAAATAAATTGGTACCAGATTTTTCTGGGCAAATCTAATGATTCA
GCCTACAGGACTGATGAAATGACTGTGGAAGCTTTTCTGTCTGAAAGAAGGTGTTGGACA
TTCAAATGTCTTTATGTATTGTACATCATATGAAATGTATATCAGTTGCTAATGGGAATT
TCTACATGTATGCTCACAGAAGCAATTTATTTAAATAATGCTATAGGCAGTGTACATACC
AACTAGTTATTAAGCTACTACACAGGAAAAAAAAGTGAACAAAGTAATCATTTGCGCCAG
TTAGTCACAATGCACACAGTGTGGTATTTGGTTCTTAAAAGAGTTGTTTTCATGTGGCTG
TTGTTGGGAGTTTCTATAACCATGGAAGGGGTGTAGGAAGAGTTATGTATAGTTAGTTGT
TACCTCTACAGGTTTGAGAGTTTCCCCATCAGACATTATCAATATACCAATGTTTTACAA
ATTGAGTGAGAGAGGGTTATTGTTCATATTTGATGAAAGAAAATCCAAATAAGGCCCACC
TAGAAATAGATATTTTATTATATATGTGCTATAGATATATCTACATAGTACAGATAGACA
TGTGTGATGCATATATACAATGTTATATATGTGAGTCTATGTGTATACACAGTGAGTCTC
TAATATACACACACTAGATTTGTGTTATGCTAACATCTTCAGGAGCTTCCCTGTGGAGCC
CTCGGAGATAAGACCATTTTAGAATAAAGAAGTTCTTCTGAGACTTCAGTTACTAACCTG
CTTTAAAAGGATCTACTTTATAACTGAATCCTATGTTGTTCATATCTAGAATTACAGTAA
GGGTCTAGTGTATTATCCAGATCT

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

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

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               1179-1412, + strand, RNAz p=0.985298

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


               
               1179-1412, + strand, RNAz p=0.985298

Predicted microRNA(s): 1 entry(ies)

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Predicted microRNA(s): 1 entry(ies)

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               1231-1309, + strand, RNAmicro p=0.972013

Predicted microRNA(s): 1 entry(ies)

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PigEST conread start position and end position of the predicted microRNA,
PigEST conread reading direction of prediction,
miRNA classificator p of RNAmicro


               
               1231-1309, + strand, RNAmicro p=0.972013

Similar Transcript(s): 6 entry(ies)

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Similar Transcript(s): 6 entry(ies)

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               1179-1347, AM026375 KN-252-lymph, Bos taurus Bos taurus cDNA clone C0007397a06 
(emb|AM026375.1|), blast E-value=0, identity=95.86% 
               

               
               1179-1347, AM027009 KN-252-lymph, Bos taurus Bos taurus cDNA clone C0007397a06 
(emb|AM027009.1|), blast E-value=0, identity=95.86% 
               

               
               1179-1347, AM030426 KN-252-spleen, Bos sp. Bos sp. cDNA clone C0006009n06 5', 
(emb|AM030426.1|), blast E-value=0, identity=95.86% 
               

               
               1179-1412, AM031521 KN-252-spleen, Bos sp. Bos sp. cDNA clone C0006009n06 3', 
(emb|AM031521.1|), blast E-value=0, identity=91.06% 
               

               
               1179-1412, 737273 MARC 6BOV Bos taurus cDNA 3', mRNA sequence (gb|CB530481.1|), 
blast E-value=0, identity=90.64% 
               

               
               1179-1347, 4094581 BARC 10BOV Bos taurus cDNA clone 10BOV33_N12 3', mRNA 
(gb|CK954627.1|), blast E-value=0, identity=95.27%

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


               
               1179-1347, AM026375 KN-252-lymph, Bos taurus Bos taurus cDNA clone C0007397a06 
(emb|AM026375.1|), blast E-value=0, identity=95.86% 
               

               
               1179-1347, AM027009 KN-252-lymph, Bos taurus Bos taurus cDNA clone C0007397a06 
(emb|AM027009.1|), blast E-value=0, identity=95.86% 
               

               
               1179-1347, AM030426 KN-252-spleen, Bos sp. Bos sp. cDNA clone C0006009n06 5', 
(emb|AM030426.1|), blast E-value=0, identity=95.86% 
               

               
               1179-1412, AM031521 KN-252-spleen, Bos sp. Bos sp. cDNA clone C0006009n06 3', 
(emb|AM031521.1|), blast E-value=0, identity=91.06% 
               

               
               1179-1412, 737273 MARC 6BOV Bos taurus cDNA 3', mRNA sequence (gb|CB530481.1|), 
blast E-value=0, identity=90.64% 
               

               
               1179-1347, 4094581 BARC 10BOV Bos taurus cDNA clone 10BOV33_N12 3', mRNA 
(gb|CK954627.1|), blast E-value=0, identity=95.27%

Homologous human UTR: 1 entry(ies)

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Homologous human UTR: 1 entry(ies)

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               5' of NM_005668, +

Homologous human UTR: 1 entry(ies)

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Human gene identifier and UTR site,
human gene reading direction


               
               5' of NM_005668, +

Aligned organism(s): 3 entry(ies)

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Aligned organism(s): 3 entry(ies)

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               1-1513, gnl|bosTau2|chr7 (62160694-62159174)
               

               
               1-1513, gnl|Hg17|chr5 (100172708-100171193)
               

               
               1-1513, gnl|Mm7|chr1 (95439497-95438001)

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


               
               1-1513, gnl|bosTau2|chr7 (62160694-62159174)
               

               
               1-1513, gnl|Hg17|chr5 (100172708-100171193)
               

               
               1-1513, gnl|Mm7|chr1 (95439497-95438001)

Expressed library(ies): 11 entry(ies)

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Expressed library(ies): 11 entry(ies)

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               cbl (0.344392)
               

               
               isp (0.300752)
               

               
               tra (0.246184)
               

               
               mgp (0.230681)
               

               
               cty (0.20816)
               

               
               sag (0.182715)
               

               
               csp (0.161186)
               

               
               mga (0.160205)
               

               
               lin (0.145603)
               

               
               thg (0.126791)
               

               
               bla (0.124347)

Expressed library(ies): 11 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


               
               cbl (0.344392)
               

               
               isp (0.300752)
               

               
               tra (0.246184)
               

               
               mgp (0.230681)
               

               
               cty (0.20816)
               

               
               sag (0.182715)
               

               
               csp (0.161186)
               

               
               mga (0.160205)
               

               
               lin (0.145603)
               

               
               thg (0.126791)
               

               
               bla (0.124347)

	1179-1347, AM026375 KN-252-lymph, Bos taurus Bos taurus cDNA clone C0007397a06 (emb\|AM026375.1\|), blast E-value=0, identity=95.86%
	1179-1347, AM027009 KN-252-lymph, Bos taurus Bos taurus cDNA clone C0007397a06 (emb\|AM027009.1\|), blast E-value=0, identity=95.86%
	1179-1347, AM030426 KN-252-spleen, Bos sp. Bos sp. cDNA clone C0006009n06 5', (emb\|AM030426.1\|), blast E-value=0, identity=95.86%
	1179-1412, AM031521 KN-252-spleen, Bos sp. Bos sp. cDNA clone C0006009n06 3', (emb\|AM031521.1\|), blast E-value=0, identity=91.06%
	1179-1412, 737273 MARC 6BOV Bos taurus cDNA 3', mRNA sequence (gb\|CB530481.1\|), blast E-value=0, identity=90.64%
	1179-1347, 4094581 BARC 10BOV Bos taurus cDNA clone 10BOV33_N12 3', mRNA (gb\|CK954627.1\|), blast E-value=0, identity=95.27%

	1-1513, gnl\|bosTau2\|chr7 (62160694-62159174)
	1-1513, gnl\|Hg17\|chr5 (100172708-100171193)
	1-1513, gnl\|Mm7\|chr1 (95439497-95438001)

	cbl (0.344392)
	isp (0.300752)
	tra (0.246184)
	mgp (0.230681)
	cty (0.20816)
	sag (0.182715)
	csp (0.161186)
	mga (0.160205)
	lin (0.145603)
	thg (0.126791)
	bla (0.124347)