Non-Coding RNA Search

Ss1.1-rtra25_l18.5

Sequence:


               
               TGTCTCATGAAGACATTTGGAGAGTCCATGATAAGAATTAAATGAAAATTTTGTGGAAAC
TGTTATTCTGTGTGACAATGCTGGCTAAACCTCAGGATTATAGGCAGGGCATCATTTACT
CATGCAGTCCAGCTATTAACCAAATTATTAGAAAGCTGACTTACATTATAGTAATTTCTC
TCATGTACTATTGATCAGGCATAAAAATAATCCCAAAATAATATAAAAGAGATTTAAAAT
TTATTTACCATAAAAATTGGTCTATAACTTAGACTCATAGAATTTTAAAGCTCCTTGGGA
GAGAAGATAACTCTCATGGGCCTATGTATAGTTCTATGTATTAACAAAACACTTATTGTT
CAGAAAATGAAACAAAACACTTATTGTTCAGACAACTAAAGCCAGGAAAGTAAATGAGCT
GGTGAAGCTGTAGGTAATTTGTATCCCAGTGGCCCTGAACCCAGGTACCAATTTCACATG
CCCTTTTCCTTACAAGGTATACCCTGATGATCATCTATATTTACTGAAGCATCAGCTTTA
TAAAAACTTCAGTGAGTTCTACTGAATTCATTTTAAATTAAGAAACTCAAGACTTTTAAA
TCAAGAATTTTAAATGATGTGATTCATTTAGGCAGCTGGCTGCCAAGTCTCTGAACTCAC
TTCAAGATAATATTTCTTCACATGTAGAACTATACATAGGCATATAAATTATTCAATGTT
ATGGTGGTAAGGTATAATTCTGATTTTTAGTATTAAGATTCAAGAAATGATCTGAGAGTT
ATAACTTTGTATTTCTAAACTGTTTCGTGAAACATTTAATTCTGGGTCACATGTAAGCAA
ATACTGATGTATCATTTAAAATCTAATAATAAAGTTGGTGATTAGAGC

Sequence:

Distiller database | Help | Less info

Blue-coloured subsequences are predicted RNA structures by RNAz


               
               TGTCTCATGAAGACATTTGGAGAGTCCATGATAAGAATTAAATGAAAATTTTGTGGAAAC
TGTTATTCTGTGTGACAATGCTGGCTAAACCTCAGGATTATAGGCAGGGCATCATTTACT
CATGCAGTCCAGCTATTAACCAAATTATTAGAAAGCTGACTTACATTATAGTAATTTCTC
TCATGTACTATTGATCAGGCATAAAAATAATCCCAAAATAATATAAAAGAGATTTAAAAT
TTATTTACCATAAAAATTGGTCTATAACTTAGACTCATAGAATTTTAAAGCTCCTTGGGA
GAGAAGATAACTCTCATGGGCCTATGTATAGTTCTATGTATTAACAAAACACTTATTGTT
CAGAAAATGAAACAAAACACTTATTGTTCAGACAACTAAAGCCAGGAAAGTAAATGAGCT
GGTGAAGCTGTAGGTAATTTGTATCCCAGTGGCCCTGAACCCAGGTACCAATTTCACATG
CCCTTTTCCTTACAAGGTATACCCTGATGATCATCTATATTTACTGAAGCATCAGCTTTA
TAAAAACTTCAGTGAGTTCTACTGAATTCATTTTAAATTAAGAAACTCAAGACTTTTAAA
TCAAGAATTTTAAATGATGTGATTCATTTAGGCAGCTGGCTGCCAAGTCTCTGAACTCAC
TTCAAGATAATATTTCTTCACATGTAGAACTATACATAGGCATATAAATTATTCAATGTT
ATGGTGGTAAGGTATAATTCTGATTTTTAGTATTAAGATTCAAGAAATGATCTGAGAGTT
ATAACTTTGTATTTCTAAACTGTTTCGTGAAACATTTAATTCTGGGTCACATGTAAGCAA
ATACTGATGTATCATTTAAAATCTAATAATAAAGTTGGTGATTAGAGC

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

More info

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

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               548-667, - strand, RNAz p=0.995029
               

               
               759-861, + strand, RNAz p=0.620748

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


               
               548-667, - strand, RNAz p=0.995029
               

               
               759-861, + strand, RNAz p=0.620748

Similar Transcript(s): 1 entry(ies)

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Similar Transcript(s): 1 entry(ies)

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               548-667, PS3U062 Pig Skin Subtraction Library- Sulfur Mustard Regulated 
(gb|BU946758.1|), blast E-value=0, identity=100%

Similar Transcript(s): 1 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


               
               548-667, PS3U062 Pig Skin Subtraction Library- Sulfur Mustard Regulated 
(gb|BU946758.1|), blast E-value=0, identity=100%

Aligned organism(s): 22 entry(ies)

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Aligned organism(s): 22 entry(ies)

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               38-293, gnl|bosTau2|chr6 (43383015-43383259)
               

               
               38-293, gnl|canFam2|chr13 (61369113-61369341)
               

               
               38-293, gnl|dasNov1|scaffold_3581 (47888-48073)
               

               
               38-293, gnl|echTel1|scaffold_301144 (1528-1718)
               

               
               38-293, gnl|hg17|chr4 (68604300-68604501)
               

               
               38-293, gnl|Hg17|chr4 (68604591-68604335)
               

               
               38-293, gnl|loxAfr1|scaffold_7980 (61665-61869)
               

               
               38-293, gnl|monDom2|scaffold_26 (34000681-34000799)
               

               
               38-293, gnl|panTro1|chr3 (77884636-77884436)
               

               
               38-293, gnl|rheMac2|chr5 (61462274-61462073)
               


               
               469-887, gnl|bosTau2|chr6 (43383668-43384085)
               

               
               469-887, gnl|canFam2|chr13 (61368521-61368933)
               

               
               469-887, gnl|dasNov1|scaffold_3581 (47368-47779)
               

               
               469-887, gnl|echTel1|scaffold_301144 (952-1363)
               

               
               469-887, gnl|hg17|chr4 (68603839-68604246)
               

               
               469-887, gnl|Hg17|chr4 (68604239-68603881)
               

               
               469-887, gnl|loxAfr1|scaffold_7980 (61108-61520)
               

               
               469-887, gnl|mm7|chr5 (86347498-86347842)
               

               
               469-887, gnl|Mm7|chr5 (86347885-86347535)
               

               
               469-887, gnl|monDom2|scaffold_26 (34000210-34000653)
               

               
               469-887, gnl|panTro1|chr3 (77885181-77884774)
               

               
               469-887, gnl|rheMac2|chr5 (61462839-61462428)

Aligned organism(s): 22 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


               
               38-293, gnl|bosTau2|chr6 (43383015-43383259)
               

               
               38-293, gnl|canFam2|chr13 (61369113-61369341)
               

               
               38-293, gnl|dasNov1|scaffold_3581 (47888-48073)
               

               
               38-293, gnl|echTel1|scaffold_301144 (1528-1718)
               

               
               38-293, gnl|hg17|chr4 (68604300-68604501)
               

               
               38-293, gnl|Hg17|chr4 (68604591-68604335)
               

               
               38-293, gnl|loxAfr1|scaffold_7980 (61665-61869)
               

               
               38-293, gnl|monDom2|scaffold_26 (34000681-34000799)
               

               
               38-293, gnl|panTro1|chr3 (77884636-77884436)
               

               
               38-293, gnl|rheMac2|chr5 (61462274-61462073)
               


               
               469-887, gnl|bosTau2|chr6 (43383668-43384085)
               

               
               469-887, gnl|canFam2|chr13 (61368521-61368933)
               

               
               469-887, gnl|dasNov1|scaffold_3581 (47368-47779)
               

               
               469-887, gnl|echTel1|scaffold_301144 (952-1363)
               

               
               469-887, gnl|hg17|chr4 (68603839-68604246)
               

               
               469-887, gnl|Hg17|chr4 (68604239-68603881)
               

               
               469-887, gnl|loxAfr1|scaffold_7980 (61108-61520)
               

               
               469-887, gnl|mm7|chr5 (86347498-86347842)
               

               
               469-887, gnl|Mm7|chr5 (86347885-86347535)
               

               
               469-887, gnl|monDom2|scaffold_26 (34000210-34000653)
               

               
               469-887, gnl|panTro1|chr3 (77885181-77884774)
               

               
               469-887, gnl|rheMac2|chr5 (61462839-61462428)

Expressed library(ies): 3 entry(ies)

More info

Expressed library(ies): 3 entry(ies)

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               tra (0.492368)
               

               
               ton (0.1755)
               

               
               bla (0.124347)

Expressed library(ies): 3 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


               
               tra (0.492368)
               

               
               ton (0.1755)
               

               
               bla (0.124347)

	548-667, - strand, RNAz p=0.995029
	759-861, + strand, RNAz p=0.620748

	38-293, gnl\|bosTau2\|chr6 (43383015-43383259)
	38-293, gnl\|canFam2\|chr13 (61369113-61369341)
	38-293, gnl\|dasNov1\|scaffold_3581 (47888-48073)
	38-293, gnl\|echTel1\|scaffold_301144 (1528-1718)
	38-293, gnl\|hg17\|chr4 (68604300-68604501)
	38-293, gnl\|Hg17\|chr4 (68604591-68604335)
	38-293, gnl\|loxAfr1\|scaffold_7980 (61665-61869)
	38-293, gnl\|monDom2\|scaffold_26 (34000681-34000799)
	38-293, gnl\|panTro1\|chr3 (77884636-77884436)
	38-293, gnl\|rheMac2\|chr5 (61462274-61462073)

	469-887, gnl\|bosTau2\|chr6 (43383668-43384085)
	469-887, gnl\|canFam2\|chr13 (61368521-61368933)
	469-887, gnl\|dasNov1\|scaffold_3581 (47368-47779)
	469-887, gnl\|echTel1\|scaffold_301144 (952-1363)
	469-887, gnl\|hg17\|chr4 (68603839-68604246)
	469-887, gnl\|Hg17\|chr4 (68604239-68603881)
	469-887, gnl\|loxAfr1\|scaffold_7980 (61108-61520)
	469-887, gnl\|mm7\|chr5 (86347498-86347842)
	469-887, gnl\|Mm7\|chr5 (86347885-86347535)
	469-887, gnl\|monDom2\|scaffold_26 (34000210-34000653)
	469-887, gnl\|panTro1\|chr3 (77885181-77884774)
	469-887, gnl\|rheMac2\|chr5 (61462839-61462428)