Non-Coding RNA Search

Ss1.1-Pig4-TMW8014B22.3

Sequence:


               
               AGGGATTACATTGATATTTCAAAGTCCTTACTCTGTAGATAAGTGTATTTTAATTTTTTC
CCCTTGTATACTTCTATTTACCTGGGGAAGGAGCTTTTAGTGTCAGGGGCTGGGGGGTGG
TGGTTTGCTATCACTTTAGCTAGCAGAATAGCGTGCCTTTATCCTCACACATCTTATTTT
TGTGGACACAGTAGCCATGCTTCATGGGGAGGTCAGAGCTGGGTATGGCAGTCTTGCCCT
TTACTAAGCTTAGTGGCATCCTTGGACTCTGTCAAATGCTCCTTTGAGTGAACCAGAGAA
GTAGCCTTTTGCAGCATGAGAATCTCGCCCCCAAAGCTCTGGGATTTACCTCCACTTCAA
TAATACTGAATGTTTTTTAGCATTAGAATGTGTTATAACATTTGAACAAATTTTGACTAC
ACTTTGGCTTTGGAAAGGAATCATTTCAATAGACACTGGTACTTTTTGAACTTGATAGCT
GAAGATTCAAAAATGCATGTTTTATACTGTTAAGTTTTAACCAGTTAGGAAAATTTTATG
TAACCAGTGATAGTTATTTTATTTTTATATGAGTTTTGTTTAGGCTGTAATGTTTAGCTT
TTTATTAACTCCTTATTCTTGCTGTCTTAAATTCCTTTCTGTCTTTAACAGCATACTTGT
CAAGATATTTAGCATGTAAAAAGCAGGTTTTTGATTTTTTTAAATGTTTTTAACAGCTTC
ATATTGAAGCTGAGACTTACCATAAATAACTTGAGTGGCAGGCCTGGTATGCTGTGTCTT
GTTACATAAAACTATTGCCAGAATCTTAGTAAATATAATGTTTTAAAAGTTTGTATATTC
ACAACAGATTATGAGGAGTTAAATTTAAGTGAAAATTACATTATTTCTCTTCCTGTGTCA
TATTTTACTAAGATTTTGTGCCTCACATTTCCTGCTGAATTGTTTACTAGTAATGTTAAA
AAGAATTGATAAATCATTTTCACTTTACATTTTTATATAATCACGTAACATGAAATATAA

Sequence:

Distiller database | Help | Less info

Blue-coloured subsequences are predicted RNA structures by RNAz


               
               AGGGATTACATTGATATTTCAAAGTCCTTACTCTGTAGATAAGTGTATTTTAATTTTTTC
CCCTTGTATACTTCTATTTACCTGGGGAAGGAGCTTTTAGTGTCAGGGGCTGGGGGGTGG
TGGTTTGCTATCACTTTAGCTAGCAGAATAGCGTGCCTTTATCCTCACACATCTTATTTT
TGTGGACACAGTAGCCATGCTTCATGGGGAGGTCAGAGCTGGGTATGGCAGTCTTGCCCT
TTACTAAGCTTAGTGGCATCCTTGGACTCTGTCAAATGCTCCTTTGAGTGAACCAGAGAA
GTAGCCTTTTGCAGCATGAGAATCTCGCCCCCAAAGCTCTGGGATTTACCTCCACTTCAA
TAATACTGAATGTTTTTTAGCATTAGAATGTGTTATAACATTTGAACAAATTTTGACTAC
ACTTTGGCTTTGGAAAGGAATCATTTCAATAGACACTGGTACTTTTTGAACTTGATAGCT
GAAGATTCAAAAATGCATGTTTTATACTGTTAAGTTTTAACCAGTTAGGAAAATTTTATG
TAACCAGTGATAGTTATTTTATTTTTATATGAGTTTTGTTTAGGCTGTAATGTTTAGCTT
TTTATTAACTCCTTATTCTTGCTGTCTTAAATTCCTTTCTGTCTTTAACAGCATACTTGT
CAAGATATTTAGCATGTAAAAAGCAGGTTTTTGATTTTTTTAAATGTTTTTAACAGCTTC
ATATTGAAGCTGAGACTTACCATAAATAACTTGAGTGGCAGGCCTGGTATGCTGTGTCTT
GTTACATAAAACTATTGCCAGAATCTTAGTAAATATAATGTTTTAAAAGTTTGTATATTC
ACAACAGATTATGAGGAGTTAAATTTAAGTGAAAATTACATTATTTCTCTTCCTGTGTCA
TATTTTACTAAGATTTTGTGCCTCACATTTCCTGCTGAATTGTTTACTAGTAATGTTAAA
AAGAATTGATAAATCATTTTCACTTTACATTTTTATATAATCACGTAACATGAAATATAA

Predicted RNA structure(s): 6 entry(ies)

More info

Predicted RNA structure(s): 6 entry(ies)

Help | Less info


               
               1-158, - strand, RNAz p=0.679824
               

               
               39-149, - strand, RNAz p=0.605101
               

               
               40-149, - strand, RNAz p=0.720201
               

               
               634-827, - strand, RNAz p=0.999328
               

               
               635-830, - strand, RNAz p=0.999385
               

               
               672-790, + strand, RNAz p=0.908477

Predicted RNA structure(s): 6 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


               
               1-158, - strand, RNAz p=0.679824
               

               
               39-149, - strand, RNAz p=0.605101
               

               
               40-149, - strand, RNAz p=0.720201
               

               
               634-827, - strand, RNAz p=0.999328
               

               
               635-830, - strand, RNAz p=0.999385
               

               
               672-790, + strand, RNAz p=0.908477

Similar Transcript(s): 6 entry(ies)

More info

Similar Transcript(s): 6 entry(ies)

Help | Less info


               
               712-687, DB820447 full-length enriched swine cDNA library, adult uterus Sus 
(dbj|DB820447.1|), blast E-value=6e-20, identity=100% 
               

               
               712-830, CR852912 Normalized and Subtracted bovine endometrium tissues 
(emb|CR852912.2|), blast E-value=0, identity=96.64% 
               

               
               712-830, 1403075 MARC 7BOV Bos taurus cDNA 3', mRNA sequence (gb|DN740393.1|), 
blast E-value=0, identity=96.64% 
               

               
               712-830, 1404409 MARC 7BOV Bos taurus cDNA 3', mRNA sequence (gb|DN741378.1|), 
blast E-value=0, identity=96.64% 
               

               
               712-830, POSM0605006_K12F porcine skeletal muscle cDNA library (PoSM) Sus 
(gb|DV897558.1|), blast E-value=0, identity=99.16% 
               

               
               712-830, PADT0811014_K15R porcine adipose tissue cDNA library (PADT) Sus 
(gb|EB417164.1|), blast E-value=0, identity=100%

Similar Transcript(s): 6 entry(ies)

Help | Less info

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


               
               712-687, DB820447 full-length enriched swine cDNA library, adult uterus Sus 
(dbj|DB820447.1|), blast E-value=6e-20, identity=100% 
               

               
               712-830, CR852912 Normalized and Subtracted bovine endometrium tissues 
(emb|CR852912.2|), blast E-value=0, identity=96.64% 
               

               
               712-830, 1403075 MARC 7BOV Bos taurus cDNA 3', mRNA sequence (gb|DN740393.1|), 
blast E-value=0, identity=96.64% 
               

               
               712-830, 1404409 MARC 7BOV Bos taurus cDNA 3', mRNA sequence (gb|DN741378.1|), 
blast E-value=0, identity=96.64% 
               

               
               712-830, POSM0605006_K12F porcine skeletal muscle cDNA library (PoSM) Sus 
(gb|DV897558.1|), blast E-value=0, identity=99.16% 
               

               
               712-830, PADT0811014_K15R porcine adipose tissue cDNA library (PADT) Sus 
(gb|EB417164.1|), blast E-value=0, identity=100%

Homologous human UTR: 1 entry(ies)

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Homologous human UTR: 1 entry(ies)

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               5' of BC032461, +

Homologous human UTR: 1 entry(ies)

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Human gene identifier and UTR site,
human gene reading direction


               
               5' of BC032461, +

Aligned organism(s): 27 entry(ies)

More info

Aligned organism(s): 27 entry(ies)

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               1-1020, gnl|bosTau2|chr4 (4223371-4222368)
               

               
               1-1020, gnl|canFam2|chr1 (33826006-33826950)
               

               
               1-1020, gnl|canFam2|chr1 (33826006-33826949)
               

               
               1-1020, gnl|dasNov1|scaffold_11459 (57012-57948)
               

               
               1-1020, gnl|dasNov1|scaffold_11459 (57012-57952)
               

               
               1-1020, gnl|echTel1|scaffold_270150 (5583-4609)
               

               
               1-1020, gnl|echTel1|scaffold_270150 (5583-4605)
               

               
               1-1020, gnl|galGal2|chr2 (21995405-21994437)
               

               
               1-1020, gnl|galGal2|chr2 (21995405-21994433)
               

               
               1-1020, gnl|hg17|chr10 (60146166-60147137)
               

               
               1-1020, gnl|hg17|chr5 (60707551-60708518)
               

               
               1-1020, gnl|Hg17|chr7 (91835859-91834867)
               

               
               1-1020, gnl|loxAfr1|scaffold_177574 (1104-219)
               

               
               1-1020, gnl|loxAfr1|scaffold_177574 (1104-215)
               

               
               1-1020, gnl|Mm7|chr5 (3575453-3576448)
               

               
               1-1020, gnl|mm7|chrX (79450518-79451463)
               

               
               1-1020, gnl|mm7|chrX (79450518-79451467)
               

               
               1-1020, gnl|monDom2|scaffold_7 (60539837-60538839)
               

               
               1-1020, gnl|monDom2|scaffold_7 (60539833-60538835)
               

               
               1-1020, gnl|oryCun1|scaffold_123943 (6739-7690)
               

               
               1-1020, gnl|oryCun1|scaffold_123943 (6739-7694)
               

               
               1-1020, gnl|panTro1|chr13 (47257840-47256866)
               

               
               1-1020, gnl|panTro1|chr8 (60929746-60930718)
               

               
               1-1020, gnl|rheMac2|chr2 (13435783-13436756)
               

               
               1-1020, gnl|rheMac2|chr2 (13435783-13436757)
               

               
               1-1020, gnl|rn3|chrX (22138289-22137360)
               

               
               1-1020, gnl|rn3|chrX (22138289-22137356)

Aligned organism(s): 27 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


               
               1-1020, gnl|bosTau2|chr4 (4223371-4222368)
               

               
               1-1020, gnl|canFam2|chr1 (33826006-33826950)
               

               
               1-1020, gnl|canFam2|chr1 (33826006-33826949)
               

               
               1-1020, gnl|dasNov1|scaffold_11459 (57012-57948)
               

               
               1-1020, gnl|dasNov1|scaffold_11459 (57012-57952)
               

               
               1-1020, gnl|echTel1|scaffold_270150 (5583-4609)
               

               
               1-1020, gnl|echTel1|scaffold_270150 (5583-4605)
               

               
               1-1020, gnl|galGal2|chr2 (21995405-21994437)
               

               
               1-1020, gnl|galGal2|chr2 (21995405-21994433)
               

               
               1-1020, gnl|hg17|chr10 (60146166-60147137)
               

               
               1-1020, gnl|hg17|chr5 (60707551-60708518)
               

               
               1-1020, gnl|Hg17|chr7 (91835859-91834867)
               

               
               1-1020, gnl|loxAfr1|scaffold_177574 (1104-219)
               

               
               1-1020, gnl|loxAfr1|scaffold_177574 (1104-215)
               

               
               1-1020, gnl|Mm7|chr5 (3575453-3576448)
               

               
               1-1020, gnl|mm7|chrX (79450518-79451463)
               

               
               1-1020, gnl|mm7|chrX (79450518-79451467)
               

               
               1-1020, gnl|monDom2|scaffold_7 (60539837-60538839)
               

               
               1-1020, gnl|monDom2|scaffold_7 (60539833-60538835)
               

               
               1-1020, gnl|oryCun1|scaffold_123943 (6739-7690)
               

               
               1-1020, gnl|oryCun1|scaffold_123943 (6739-7694)
               

               
               1-1020, gnl|panTro1|chr13 (47257840-47256866)
               

               
               1-1020, gnl|panTro1|chr8 (60929746-60930718)
               

               
               1-1020, gnl|rheMac2|chr2 (13435783-13436756)
               

               
               1-1020, gnl|rheMac2|chr2 (13435783-13436757)
               

               
               1-1020, gnl|rn3|chrX (22138289-22137360)
               

               
               1-1020, gnl|rn3|chrX (22138289-22137356)

Expressed library(ies): 8 entry(ies)

More info

Expressed library(ies): 8 entry(ies)

Help | Less info


               
               liv (0.438853)
               

               
               fli (0.202881)
               

               
               fat (0.147427)
               

               
               lnt (0.142308)
               

               
               cst (0.140036)
               

               
               pla (0.133672)
               

               
               thg (0.126791)
               

               
               ebs (0.118301)

Expressed library(ies): 8 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


               
               liv (0.438853)
               

               
               fli (0.202881)
               

               
               fat (0.147427)
               

               
               lnt (0.142308)
               

               
               cst (0.140036)
               

               
               pla (0.133672)
               

               
               thg (0.126791)
               

               
               ebs (0.118301)

	1-158, - strand, RNAz p=0.679824
	39-149, - strand, RNAz p=0.605101
	40-149, - strand, RNAz p=0.720201
	634-827, - strand, RNAz p=0.999328
	635-830, - strand, RNAz p=0.999385
	672-790, + strand, RNAz p=0.908477

	712-687, DB820447 full-length enriched swine cDNA library, adult uterus Sus (dbj\|DB820447.1\|), blast E-value=6e-20, identity=100%
	712-830, CR852912 Normalized and Subtracted bovine endometrium tissues (emb\|CR852912.2\|), blast E-value=0, identity=96.64%
	712-830, 1403075 MARC 7BOV Bos taurus cDNA 3', mRNA sequence (gb\|DN740393.1\|), blast E-value=0, identity=96.64%
	712-830, 1404409 MARC 7BOV Bos taurus cDNA 3', mRNA sequence (gb\|DN741378.1\|), blast E-value=0, identity=96.64%
	712-830, POSM0605006_K12F porcine skeletal muscle cDNA library (PoSM) Sus (gb\|DV897558.1\|), blast E-value=0, identity=99.16%
	712-830, PADT0811014_K15R porcine adipose tissue cDNA library (PADT) Sus (gb\|EB417164.1\|), blast E-value=0, identity=100%

	1-1020, gnl\|bosTau2\|chr4 (4223371-4222368)
	1-1020, gnl\|canFam2\|chr1 (33826006-33826950)
	1-1020, gnl\|canFam2\|chr1 (33826006-33826949)
	1-1020, gnl\|dasNov1\|scaffold_11459 (57012-57948)
	1-1020, gnl\|dasNov1\|scaffold_11459 (57012-57952)
	1-1020, gnl\|echTel1\|scaffold_270150 (5583-4609)
	1-1020, gnl\|echTel1\|scaffold_270150 (5583-4605)
	1-1020, gnl\|galGal2\|chr2 (21995405-21994437)
	1-1020, gnl\|galGal2\|chr2 (21995405-21994433)
	1-1020, gnl\|hg17\|chr10 (60146166-60147137)
	1-1020, gnl\|hg17\|chr5 (60707551-60708518)
	1-1020, gnl\|Hg17\|chr7 (91835859-91834867)
	1-1020, gnl\|loxAfr1\|scaffold_177574 (1104-219)
	1-1020, gnl\|loxAfr1\|scaffold_177574 (1104-215)
	1-1020, gnl\|Mm7\|chr5 (3575453-3576448)
	1-1020, gnl\|mm7\|chrX (79450518-79451463)
	1-1020, gnl\|mm7\|chrX (79450518-79451467)
	1-1020, gnl\|monDom2\|scaffold_7 (60539837-60538839)
	1-1020, gnl\|monDom2\|scaffold_7 (60539833-60538835)
	1-1020, gnl\|oryCun1\|scaffold_123943 (6739-7690)
	1-1020, gnl\|oryCun1\|scaffold_123943 (6739-7694)
	1-1020, gnl\|panTro1\|chr13 (47257840-47256866)
	1-1020, gnl\|panTro1\|chr8 (60929746-60930718)
	1-1020, gnl\|rheMac2\|chr2 (13435783-13436756)
	1-1020, gnl\|rheMac2\|chr2 (13435783-13436757)
	1-1020, gnl\|rn3\|chrX (22138289-22137360)
	1-1020, gnl\|rn3\|chrX (22138289-22137356)

	liv (0.438853)
	fli (0.202881)
	fat (0.147427)
	lnt (0.142308)
	cst (0.140036)
	pla (0.133672)
	thg (0.126791)
	ebs (0.118301)