Non-Coding RNA Search

Ss1.1-rpbfe0139_d12.5

Sequence:


               
               ATCTTAAAAGATCTGCCTTAGCAATGGCTCTTATCTGTTTCATGTTGATCTTTAAAGTTT
CCTAACGCCATACGAAAGAGAGGTGAAGGAAAATCCCAGTTTAGACTAAGTTACAGTACA
TGTTTTCCTAAGTGATTGCTTAAAGCTGTATTGTTCCCAGTTACTAGTTGGCACAAATTC
AGCTACATTCTGAATAACATTTGTTCACCTTTCAGGCAAGGTGATATTGGACATGTCAGT
GTAAATAACACTAAGGTTAGGATCTTCTAAGTGTATAACTGTCTCCTAAGCCCATCACTG
TGGCACACTGTAGAGTGAGCTTATAGTTTAATTGAGATATTTATCTTGTGGAAATATTAA
AAAAAAAAGCCTATGCTTGTGTAAGTGAAAAAAATCACATTCATTTGTTTAAAAATGTAA
AGCTATTTTGTAGAGGCTCAGTACTTTTCCAATGCACTGTTGTATTAATGCATTAAAAAT
TGTAAAGTACCATGCTTAGAAATGAAAAAAACTGCTTTTTGTGAGCCAACATAGTAAACA

Sequence:

Distiller database | Help | Less info

Blue-coloured subsequences are predicted RNA structures by RNAz


               
               ATCTTAAAAGATCTGCCTTAGCAATGGCTCTTATCTGTTTCATGTTGATCTTTAAAGTTT
CCTAACGCCATACGAAAGAGAGGTGAAGGAAAATCCCAGTTTAGACTAAGTTACAGTACA
TGTTTTCCTAAGTGATTGCTTAAAGCTGTATTGTTCCCAGTTACTAGTTGGCACAAATTC
AGCTACATTCTGAATAACATTTGTTCACCTTTCAGGCAAGGTGATATTGGACATGTCAGT
GTAAATAACACTAAGGTTAGGATCTTCTAAGTGTATAACTGTCTCCTAAGCCCATCACTG
TGGCACACTGTAGAGTGAGCTTATAGTTTAATTGAGATATTTATCTTGTGGAAATATTAA
AAAAAAAAGCCTATGCTTGTGTAAGTGAAAAAAATCACATTCATTTGTTTAAAAATGTAA
AGCTATTTTGTAGAGGCTCAGTACTTTTCCAATGCACTGTTGTATTAATGCATTAAAAAT
TGTAAAGTACCATGCTTAGAAATGAAAAAAACTGCTTTTTGTGAGCCAACATAGTAAACA

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

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

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               149-305, - strand, RNAz p=0.826716
               

               
               204-298, - strand, RNAz p=0.525724
               

               
               386-538, - strand, RNAz p=0.863336
               

               
               407-538, - strand, RNAz p=0.996697

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


               
               149-305, - strand, RNAz p=0.826716
               

               
               204-298, - strand, RNAz p=0.525724
               

               
               386-538, - strand, RNAz p=0.863336
               

               
               407-538, - strand, RNAz p=0.996697

Similar Transcript(s): 6 entry(ies)

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Similar Transcript(s): 6 entry(ies)

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               407-537, 602378767F1 NIH_MGC_92 Homo sapiens cDNA clone IMAGE (gb|BG259627.1|), 
blast E-value=0, identity=93.13% 
               

               
               407-535, 477796 MARC 2BOV Bos taurus cDNA 5', mRNA sequence (gb|BI849845.1|), 
blast E-value=1.4013e-45, identity=93.85% 
               

               
               407-537, AGENCOURT_8120865 Lupski_dorsal_root_ganglion Homo sapiens cDNA 
(gb|BU146494.1|), blast E-value=0, identity=93.13% 
               

               
               407-534, 757920 MARC 6BOV Bos taurus cDNA 3', mRNA sequence (gb|CB533319.1|), 
blast E-value=2.8026e-45, identity=93.8% 
               

               
               407-535, 957601 MARC 1BOV Bos taurus cDNA 3', mRNA sequence (gb|CK769558.1|), 
blast E-value=1.4013e-45, identity=93.85% 
               

               
               407-535, UMC-bend_0A02-016-a04 Day 18 Uterus from a pregnant animal bend Bos 
(gb|CN999387.1|), blast E-value=1.4013e-45, identity=93.85%

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


               
               407-537, 602378767F1 NIH_MGC_92 Homo sapiens cDNA clone IMAGE (gb|BG259627.1|), 
blast E-value=0, identity=93.13% 
               

               
               407-535, 477796 MARC 2BOV Bos taurus cDNA 5', mRNA sequence (gb|BI849845.1|), 
blast E-value=1.4013e-45, identity=93.85% 
               

               
               407-537, AGENCOURT_8120865 Lupski_dorsal_root_ganglion Homo sapiens cDNA 
(gb|BU146494.1|), blast E-value=0, identity=93.13% 
               

               
               407-534, 757920 MARC 6BOV Bos taurus cDNA 3', mRNA sequence (gb|CB533319.1|), 
blast E-value=2.8026e-45, identity=93.8% 
               

               
               407-535, 957601 MARC 1BOV Bos taurus cDNA 3', mRNA sequence (gb|CK769558.1|), 
blast E-value=1.4013e-45, identity=93.85% 
               

               
               407-535, UMC-bend_0A02-016-a04 Day 18 Uterus from a pregnant animal bend Bos 
(gb|CN999387.1|), blast E-value=1.4013e-45, identity=93.85%

Aligned organism(s): 17 entry(ies)

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Aligned organism(s): 17 entry(ies)

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               1-538, gnl|bosTau2|chrX (21711592-21712126)
               

               
               1-538, gnl|canFam2|chrX (60938387-60937849)
               

               
               1-538, gnl|danRer3|chr14 (8997506-8996942)
               

               
               1-538, gnl|dasNov1|scaffold_3115 (18360-18888)
               

               
               1-538, gnl|echTel1|scaffold_233199 (3843-4358)
               

               
               1-538, gnl|galGal2|chr4 (12091879-12091386)
               

               
               1-538, gnl|hg17|chr15 (47875782-47876323)
               

               
               1-538, gnl|Hg17|chrX (73594005-73593486)
               

               
               1-538, gnl|loxAfr1|scaffold_22900 (14664-14120)
               

               
               1-538, gnl|mm7|chrX (99289659-99289112)
               

               
               1-538, gnl|Mm7|chrX (99289562-99289030)
               

               
               1-538, gnl|monDom2|scaffold_224 (477081-477636)
               

               
               1-538, gnl|oryCun1|scaffold_186434 (6722-6172)
               

               
               1-538, gnl|panTro1|chr16 (47887884-47888431)
               

               
               1-538, gnl|rheMac2|chr7 (28115775-28116306)
               

               
               1-538, gnl|rn3|chrX (92042808-92042262)
               

               
               1-538, gnl|xenTro1|scaffold_69 (1924919-1925498)

Aligned organism(s): 17 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


               
               1-538, gnl|bosTau2|chrX (21711592-21712126)
               

               
               1-538, gnl|canFam2|chrX (60938387-60937849)
               

               
               1-538, gnl|danRer3|chr14 (8997506-8996942)
               

               
               1-538, gnl|dasNov1|scaffold_3115 (18360-18888)
               

               
               1-538, gnl|echTel1|scaffold_233199 (3843-4358)
               

               
               1-538, gnl|galGal2|chr4 (12091879-12091386)
               

               
               1-538, gnl|hg17|chr15 (47875782-47876323)
               

               
               1-538, gnl|Hg17|chrX (73594005-73593486)
               

               
               1-538, gnl|loxAfr1|scaffold_22900 (14664-14120)
               

               
               1-538, gnl|mm7|chrX (99289659-99289112)
               

               
               1-538, gnl|Mm7|chrX (99289562-99289030)
               

               
               1-538, gnl|monDom2|scaffold_224 (477081-477636)
               

               
               1-538, gnl|oryCun1|scaffold_186434 (6722-6172)
               

               
               1-538, gnl|panTro1|chr16 (47887884-47888431)
               

               
               1-538, gnl|rheMac2|chr7 (28115775-28116306)
               

               
               1-538, gnl|rn3|chrX (92042808-92042262)
               

               
               1-538, gnl|xenTro1|scaffold_69 (1924919-1925498)

Expressed library(ies): 2 entry(ies)

More info

Expressed library(ies): 2 entry(ies)

Help | Less info


               
               bfe (0.149858)
               

               
               sug (0.127291)

Expressed library(ies): 2 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


               
               bfe (0.149858)
               

               
               sug (0.127291)

	149-305, - strand, RNAz p=0.826716
	204-298, - strand, RNAz p=0.525724
	386-538, - strand, RNAz p=0.863336
	407-538, - strand, RNAz p=0.996697

	407-537, 602378767F1 NIH_MGC_92 Homo sapiens cDNA clone IMAGE (gb\|BG259627.1\|), blast E-value=0, identity=93.13%
	407-535, 477796 MARC 2BOV Bos taurus cDNA 5', mRNA sequence (gb\|BI849845.1\|), blast E-value=1.4013e-45, identity=93.85%
	407-537, AGENCOURT_8120865 Lupski_dorsal_root_ganglion Homo sapiens cDNA (gb\|BU146494.1\|), blast E-value=0, identity=93.13%
	407-534, 757920 MARC 6BOV Bos taurus cDNA 3', mRNA sequence (gb\|CB533319.1\|), blast E-value=2.8026e-45, identity=93.8%
	407-535, 957601 MARC 1BOV Bos taurus cDNA 3', mRNA sequence (gb\|CK769558.1\|), blast E-value=1.4013e-45, identity=93.85%
	407-535, UMC-bend_0A02-016-a04 Day 18 Uterus from a pregnant animal bend Bos (gb\|CN999387.1\|), blast E-value=1.4013e-45, identity=93.85%

	1-538, gnl\|bosTau2\|chrX (21711592-21712126)
	1-538, gnl\|canFam2\|chrX (60938387-60937849)
	1-538, gnl\|danRer3\|chr14 (8997506-8996942)
	1-538, gnl\|dasNov1\|scaffold_3115 (18360-18888)
	1-538, gnl\|echTel1\|scaffold_233199 (3843-4358)
	1-538, gnl\|galGal2\|chr4 (12091879-12091386)
	1-538, gnl\|hg17\|chr15 (47875782-47876323)
	1-538, gnl\|Hg17\|chrX (73594005-73593486)
	1-538, gnl\|loxAfr1\|scaffold_22900 (14664-14120)
	1-538, gnl\|mm7\|chrX (99289659-99289112)
	1-538, gnl\|Mm7\|chrX (99289562-99289030)
	1-538, gnl\|monDom2\|scaffold_224 (477081-477636)
	1-538, gnl\|oryCun1\|scaffold_186434 (6722-6172)
	1-538, gnl\|panTro1\|chr16 (47887884-47888431)
	1-538, gnl\|rheMac2\|chr7 (28115775-28116306)
	1-538, gnl\|rn3\|chrX (92042808-92042262)
	1-538, gnl\|xenTro1\|scaffold_69 (1924919-1925498)