Non-Coding RNA Search

Ss1.1-Pig2-71A05.5

Sequence:


               
               GTTTCCCCAGCTCCCCGGGGCAAGGCCTCCCCCCTAGACTCCCTGCCTCAGATCCAAAGC
CCACCAACCAGCCATTCTGGGCCACGTTAGCCCTGTCACTCCCTCCCTGGCCTCTGGAAC
TGCTCGTCAGTCTTGCTTCTTACCCTTCGGCAAAGAGGAGGCTGTTTGGATGGATTCAGT
GGGATCCTTCCAGGGCCAGAGAGCATCTCGGTTGGGAGCGTGGCGTCTCCAAACCTGAAA
TGCTGTAGGAGATGTTCATGATTCAGACACCTGCTCTGAGGTCCTAAAATGCCAGTTTCC
CCGTCTCTTCAGTTACCCCTGGCTGTTCAGGGCGAGGAGAAGGGCCCACCCAGAGGCAAA
AGGGGTGCTCCCAGCGAGGGTAAGTGTTGGAGCGAGTATGCTTGTGTCTCTGTGTGTACG
TGTGCTCGCCCTCATCACCGTTTCCTTTTCAAGTCAGAGTCTGCCCGAAAGTCAAGGGTT
TATGGAGAGCTGGGCTCTCCAGGGACTCTGGTTGCCATAGCAACCTTCCAGACTGTTCTC
TCTATCTTCTGCTTTGGGCAGTAAGGAAGAGCATGCGTCTACCTATTCCCAGCTTCTGAA
TCGGGGACACCTCCCCCATATTGGTTTAGGGGCCGGTGGCACCTGGACGGGGATGCATGC
CCTTTGGAAGGTGGAGGGGGGAGAAGCAGGTCCCCAAAACTTCCCATCTGGACCTTTCTT
CCTGGTTTCCCCACCTGGTCCTTGCAGCTGCCTCGTCTCACCACGGAGTCTTCAGAAACT

Sequence:

Distiller database | Help | Less info

Blue-coloured subsequences are predicted RNA structures by RNAz


               
               GTTTCCCCAGCTCCCCGGGGCAAGGCCTCCCCCCTAGACTCCCTGCCTCAGATCCAAAGC
CCACCAACCAGCCATTCTGGGCCACGTTAGCCCTGTCACTCCCTCCCTGGCCTCTGGAAC
TGCTCGTCAGTCTTGCTTCTTACCCTTCGGCAAAGAGGAGGCTGTTTGGATGGATTCAGT
GGGATCCTTCCAGGGCCAGAGAGCATCTCGGTTGGGAGCGTGGCGTCTCCAAACCTGAAA
TGCTGTAGGAGATGTTCATGATTCAGACACCTGCTCTGAGGTCCTAAAATGCCAGTTTCC
CCGTCTCTTCAGTTACCCCTGGCTGTTCAGGGCGAGGAGAAGGGCCCACCCAGAGGCAAA
AGGGGTGCTCCCAGCGAGGGTAAGTGTTGGAGCGAGTATGCTTGTGTCTCTGTGTGTACG
TGTGCTCGCCCTCATCACCGTTTCCTTTTCAAGTCAGAGTCTGCCCGAAAGTCAAGGGTT
TATGGAGAGCTGGGCTCTCCAGGGACTCTGGTTGCCATAGCAACCTTCCAGACTGTTCTC
TCTATCTTCTGCTTTGGGCAGTAAGGAAGAGCATGCGTCTACCTATTCCCAGCTTCTGAA
TCGGGGACACCTCCCCCATATTGGTTTAGGGGCCGGTGGCACCTGGACGGGGATGCATGC
CCTTTGGAAGGTGGAGGGGGGAGAAGCAGGTCCCCAAAACTTCCCATCTGGACCTTTCTT
CCTGGTTTCCCCACCTGGTCCTTGCAGCTGCCTCGTCTCACCACGGAGTCTTCAGAAACT

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

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

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               3-121, - strand, RNAz p=0.767373
               

               
               444-596, + strand, RNAz p=0.994259

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


               
               3-121, - strand, RNAz p=0.767373
               

               
               444-596, + strand, RNAz p=0.994259

Similar Transcript(s): 6 entry(ies)

More info

Similar Transcript(s): 6 entry(ies)

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               474-596, DA568962 HEMBA1 Homo sapiens cDNA clone HEMBA1001885 5', mRNA 
(dbj|DA568962.1|), blast E-value=5e-26, identity=87.8% 
               

               
               474-596, tj99f04.x1 NCI_CGAP_Lu24 Homo sapiens cDNA clone IMAGE 
(gb|AI457372.1|), blast E-value=5e-26, identity=87.8% 
               

               
               474-596, 7e34e09.x1 NCI_CGAP_Lu24 Homo sapiens cDNA clone IMAGE 
(gb|BE670407.1|), blast E-value=1e-23, identity=86.99% 
               

               
               474-596, nad28c09.x1 NCI_CGAP_Lu24 Homo sapiens cDNA clone IMAGE 
(gb|BG149412.1|), blast E-value=5e-26, identity=87.8% 
               

               
               444-544, UI-M-GI0-cgk-d-03-0-UI.r1 NIH_BMAP_GI0 Mus musculus cDNA clone 
(gb|CD352159.1|), blast E-value=8e-25, identity=90.1% 
               

               
               444-544, NMA08070 Mus Musculus Lateral Ventricle Wall C57BL/6 adult Mus 
(gb|CX240077.1|), blast E-value=8e-25, identity=90.1%

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


               
               474-596, DA568962 HEMBA1 Homo sapiens cDNA clone HEMBA1001885 5', mRNA 
(dbj|DA568962.1|), blast E-value=5e-26, identity=87.8% 
               

               
               474-596, tj99f04.x1 NCI_CGAP_Lu24 Homo sapiens cDNA clone IMAGE 
(gb|AI457372.1|), blast E-value=5e-26, identity=87.8% 
               

               
               474-596, 7e34e09.x1 NCI_CGAP_Lu24 Homo sapiens cDNA clone IMAGE 
(gb|BE670407.1|), blast E-value=1e-23, identity=86.99% 
               

               
               474-596, nad28c09.x1 NCI_CGAP_Lu24 Homo sapiens cDNA clone IMAGE 
(gb|BG149412.1|), blast E-value=5e-26, identity=87.8% 
               

               
               444-544, UI-M-GI0-cgk-d-03-0-UI.r1 NIH_BMAP_GI0 Mus musculus cDNA clone 
(gb|CD352159.1|), blast E-value=8e-25, identity=90.1% 
               

               
               444-544, NMA08070 Mus Musculus Lateral Ventricle Wall C57BL/6 adult Mus 
(gb|CX240077.1|), blast E-value=8e-25, identity=90.1%

Aligned organism(s): 3 entry(ies)

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Aligned organism(s): 3 entry(ies)

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               3-780, gnl|bosTau2|chr5 (63935797-63936574)
               

               
               3-780, gnl|Hg17|chr12 (4792849-4793637)
               

               
               3-780, gnl|Mm7|chr6 (126759370-126758606)

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


               
               3-780, gnl|bosTau2|chr5 (63935797-63936574)
               

               
               3-780, gnl|Hg17|chr12 (4792849-4793637)
               

               
               3-780, gnl|Mm7|chr6 (126759370-126758606)

Expressed library(ies): 3 entry(ies)

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Expressed library(ies): 3 entry(ies)

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               eru (0.240096)
               

               
               eep (0.122564)
               

               
               pgl (0.118483)

Expressed library(ies): 3 entry(ies)

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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


               
               eru (0.240096)
               

               
               eep (0.122564)
               

               
               pgl (0.118483)

	3-121, - strand, RNAz p=0.767373
	444-596, + strand, RNAz p=0.994259

	474-596, DA568962 HEMBA1 Homo sapiens cDNA clone HEMBA1001885 5', mRNA (dbj\|DA568962.1\|), blast E-value=5e-26, identity=87.8%
	474-596, tj99f04.x1 NCI_CGAP_Lu24 Homo sapiens cDNA clone IMAGE (gb\|AI457372.1\|), blast E-value=5e-26, identity=87.8%
	474-596, 7e34e09.x1 NCI_CGAP_Lu24 Homo sapiens cDNA clone IMAGE (gb\|BE670407.1\|), blast E-value=1e-23, identity=86.99%
	474-596, nad28c09.x1 NCI_CGAP_Lu24 Homo sapiens cDNA clone IMAGE (gb\|BG149412.1\|), blast E-value=5e-26, identity=87.8%
	444-544, UI-M-GI0-cgk-d-03-0-UI.r1 NIH_BMAP_GI0 Mus musculus cDNA clone (gb\|CD352159.1\|), blast E-value=8e-25, identity=90.1%
	444-544, NMA08070 Mus Musculus Lateral Ventricle Wall C57BL/6 adult Mus (gb\|CX240077.1\|), blast E-value=8e-25, identity=90.1%

	3-780, gnl\|bosTau2\|chr5 (63935797-63936574)
	3-780, gnl\|Hg17\|chr12 (4792849-4793637)
	3-780, gnl\|Mm7\|chr6 (126759370-126758606)