Non-Coding RNA Search

Ss1.1-rese12c_l8.5

Sequence:


               
               TTTTTTTTTTTTTTTTTTTTCCTTCCTTGCCTCTGCAGCCGAAGGAGGAGATGTTGAGTG
ACCAGCGCTTGGAAGGGACCCGAGAACCTAGTTGGAATGCCACACCAGCGAGGGCGAGGG
GCGGGAAGGAGAAGGACACGAACTGGAAGGGGGCGAATACTAAAACTGAAATGGATTTGC
ACGTTCGGGACAAGGTGGCGGCGTCTCCTGGGCCTCCGCCTGCTGCATCTCTGAAATCAG
TGAGGTGAGACTTCACAGGCCCGCAGGCGCGGAGGAGAGGAGACTGTTTGATGTGGTACC
GGGGCAGTGGAGGGCGAGTGGTTTCGGGGGAAAAAAAAAGGTTTTTTTCTTCTCTTAATC
GGAATCGTGATGGTGTTGGATTATTTCACTGGTGGGGTTAATATAGCATGTTATCCTGTC
TATCTTTTAAAGATTTCTGTATAAGACTGTTGAGCAGTTTTTAAAATAGTGTAGGATAAT
ATAAAAAGCAGATAGATGGCGCTATGTTTGATTCCTACAACAGAAATTATCACCAGCTTT
TTTTCATTCTTAACTCTTTAAAGGATTCAAACGCAACTCAAATCTGTGCTGGACTTTAAA
AAACAATTCAGGACCAAATTTTTTCTCAGTGTGTATGTGTTTATTCCTTATAGGTGTAAA
TGAGAAGACGTGTTTTTTTCCCTCACCGATGCTCCATCCTCGTATTTTTTTTCCTTGTAA
ATGTAATCAGATGCCATTTTATATGTGGACGTATTTATACTGGCCAAACATTTTTTATTT
TGTCCCTTTTTCCTTTCTTTTGCTTTCTTTTCTTTCTTTTACTTCCTTATTTCGTCCTTC
CTTTCTTTTTTTCTTTTTCTTTGTTTTCTTTCTTTCTTTCTTTTTTTTTGGTAGTTGTTC
TTACCCACGCCATTTTACGTCTCCTTCACTGAAGGGCTAGAGTTTTAACTTTTAATTTTT
TATATTTAAATGTAGACTTTTGACACTTTTAAAAAAACAAAAAAAGACAAGAGAGATGAA
AACGTTTGATTATTTTCTCAGTGTATTTTTGTAAAAAATATATAAAGGGGGTGTTAATCG
GTGTAAATCGCTGTTTGGATTTCCTGATTTTATAATAGGGCGGCTGGTTAATATCTCACA
CAGTTTTAAAAAATCAGCCCCTAATTTCTCCATGTTTACACTTCAATCTGCAGGCTTCTT
AAAGTGACAGTATCCCTTAACCTGCCACCAGTATCCATCCTTCGACCCCAGTCTTATAGA
TGGTGGGGGGAGAATTAGCCAAACACTGTATGCTTTTAAGAAAAACAAATTTTTTTAAAC
AAAATACTGTTTTATCCAGAGGCTTTAAAACTGGTGCATTTACAGCAAAAAAGGGATCCT
GTAGCTTTAACTTGTAAACCACATCTTTTTTGCACTTTTTTTATAAGCAAAAACGTGCCG
TTTAAACCACTGGATCTATCTAAATGCCGATTTGAGTTCGCGACACTATGTACTGCGTTT
TTCATTCTCGTATTTGACTATTTAATCCTTTCTACTTGTCGCTAAATATAATTGTTTTAG
TCTTATGGCATGATGATAGCATATGTGTTCAGGTTTATAGCTGTTGTGTTTAAAGATTGA
AAAAAGTGGAAAACATCTTTGTACATTTAAGTCTGTATTATAATAAGCAAAAAGATTGTG
TGTATGTATGTTTAATATAACATGACAGGCACTAGGACGTCTGCCTTTTAAGGCAGTTCC
GTTAAGGGTTTTTGTTTTTAAACTTTTTTTTTTGCCATCCATCCTGTGCAATATGCCGTG
TAGAATATTTGTCTTAAAATCCAAGGCCACAAAAAACAATGTTTAGGGGAAAAGGAAAAA
GAAAAAAAAATCATGCCAGCTAATCATGTCAAGTTCACTGCCTGTCAGATTGTTGATATA
TACCTTCTGTAAATAACTTTTTTTGAGAAGGAAATAAAATCAGCTGGAACTGAACCCTAA

Sequence:

Distiller database | Help | Less info

Blue-coloured subsequences are predicted RNA structures by RNAz


               
               TTTTTTTTTTTTTTTTTTTTCCTTCCTTGCCTCTGCAGCCGAAGGAGGAGATGTTGAGTG
ACCAGCGCTTGGAAGGGACCCGAGAACCTAGTTGGAATGCCACACCAGCGAGGGCGAGGG
GCGGGAAGGAGAAGGACACGAACTGGAAGGGGGCGAATACTAAAACTGAAATGGATTTGC
ACGTTCGGGACAAGGTGGCGGCGTCTCCTGGGCCTCCGCCTGCTGCATCTCTGAAATCAG
TGAGGTGAGACTTCACAGGCCCGCAGGCGCGGAGGAGAGGAGACTGTTTGATGTGGTACC
GGGGCAGTGGAGGGCGAGTGGTTTCGGGGGAAAAAAAAAGGTTTTTTTCTTCTCTTAATC
GGAATCGTGATGGTGTTGGATTATTTCACTGGTGGGGTTAATATAGCATGTTATCCTGTC
TATCTTTTAAAGATTTCTGTATAAGACTGTTGAGCAGTTTTTAAAATAGTGTAGGATAAT
ATAAAAAGCAGATAGATGGCGCTATGTTTGATTCCTACAACAGAAATTATCACCAGCTTT
TTTTCATTCTTAACTCTTTAAAGGATTCAAACGCAACTCAAATCTGTGCTGGACTTTAAA
AAACAATTCAGGACCAAATTTTTTCTCAGTGTGTATGTGTTTATTCCTTATAGGTGTAAA
TGAGAAGACGTGTTTTTTTCCCTCACCGATGCTCCATCCTCGTATTTTTTTTCCTTGTAA
ATGTAATCAGATGCCATTTTATATGTGGACGTATTTATACTGGCCAAACATTTTTTATTT
TGTCCCTTTTTCCTTTCTTTTGCTTTCTTTTCTTTCTTTTACTTCCTTATTTCGTCCTTC
CTTTCTTTTTTTCTTTTTCTTTGTTTTCTTTCTTTCTTTCTTTTTTTTTGGTAGTTGTTC
TTACCCACGCCATTTTACGTCTCCTTCACTGAAGGGCTAGAGTTTTAACTTTTAATTTTT
TATATTTAAATGTAGACTTTTGACACTTTTAAAAAAACAAAAAAAGACAAGAGAGATGAA
AACGTTTGATTATTTTCTCAGTGTATTTTTGTAAAAAATATATAAAGGGGGTGTTAATCG
GTGTAAATCGCTGTTTGGATTTCCTGATTTTATAATAGGGCGGCTGGTTAATATCTCACA
CAGTTTTAAAAAATCAGCCCCTAATTTCTCCATGTTTACACTTCAATCTGCAGGCTTCTT
AAAGTGACAGTATCCCTTAACCTGCCACCAGTATCCATCCTTCGACCCCAGTCTTATAGA
TGGTGGGGGGAGAATTAGCCAAACACTGTATGCTTTTAAGAAAAACAAATTTTTTTAAAC
AAAATACTGTTTTATCCAGAGGCTTTAAAACTGGTGCATTTACAGCAAAAAAGGGATCCT
GTAGCTTTAACTTGTAAACCACATCTTTTTTGCACTTTTTTTATAAGCAAAAACGTGCCG
TTTAAACCACTGGATCTATCTAAATGCCGATTTGAGTTCGCGACACTATGTACTGCGTTT
TTCATTCTCGTATTTGACTATTTAATCCTTTCTACTTGTCGCTAAATATAATTGTTTTAG
TCTTATGGCATGATGATAGCATATGTGTTCAGGTTTATAGCTGTTGTGTTTAAAGATTGA
AAAAAGTGGAAAACATCTTTGTACATTTAAGTCTGTATTATAATAAGCAAAAAGATTGTG
TGTATGTATGTTTAATATAACATGACAGGCACTAGGACGTCTGCCTTTTAAGGCAGTTCC
GTTAAGGGTTTTTGTTTTTAAACTTTTTTTTTTGCCATCCATCCTGTGCAATATGCCGTG
TAGAATATTTGTCTTAAAATCCAAGGCCACAAAAAACAATGTTTAGGGGAAAAGGAAAAA
GAAAAAAAAATCATGCCAGCTAATCATGTCAAGTTCACTGCCTGTCAGATTGTTGATATA
TACCTTCTGTAAATAACTTTTTTTGAGAAGGAAATAAAATCAGCTGGAACTGAACCCTAA

Predicted RNA structure(s): 3 entry(ies)

More info

Predicted RNA structure(s): 3 entry(ies)

Help | Less info


               
               1360-1477, - strand, RNAz p=0.739881
               

               
               1638-1806, - strand, RNAz p=0.999355
               

               
               1851-1980, - strand, RNAz p=0.930138

Predicted RNA structure(s): 3 entry(ies)

Help | Less info

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


               
               1360-1477, - strand, RNAz p=0.739881
               

               
               1638-1806, - strand, RNAz p=0.999355
               

               
               1851-1980, - strand, RNAz p=0.930138

Similar Transcript(s): 6 entry(ies)

More info

Similar Transcript(s): 6 entry(ies)

Help | Less info


               
               1638-1748, UMC-pd3end3-002-g08 Endometrium gilt D3 of estrous cycle pd3end Sus 
(gb|CO988487.1|), blast E-value=0, identity=100% 
               

               
               1638-1748, CT02040B1A12 Equine Articular Cartilage cDNA Library Equus caballus 
(gb|CX605106.1|), blast E-value=0, identity=100% 
               

               
               1638-1748, 1458501 MARC 7BOV Bos taurus cDNA 5', mRNA sequence (gb|DT896403.1|), 
blast E-value=0, identity=99.11% 
               

               
               1638-1748, 1463186 MARC 7BOV Bos taurus cDNA 3', mRNA sequence (gb|DT898590.1|), 
blast E-value=0, identity=99.11% 
               

               
               1638-1748, LB01811.CR_A06 GC_BGC-18 Bos taurus cDNA clone IMAGE 
(gb|EE221128.1|), blast E-value=0, identity=99.11% 
               

               
               1638-1748, LB02217.CR_A12 GC_BGC-22 Bos taurus cDNA clone IMAGE 
(gb|EE239941.1|), blast E-value=0, identity=99.11%

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


               
               1638-1748, UMC-pd3end3-002-g08 Endometrium gilt D3 of estrous cycle pd3end Sus 
(gb|CO988487.1|), blast E-value=0, identity=100% 
               

               
               1638-1748, CT02040B1A12 Equine Articular Cartilage cDNA Library Equus caballus 
(gb|CX605106.1|), blast E-value=0, identity=100% 
               

               
               1638-1748, 1458501 MARC 7BOV Bos taurus cDNA 5', mRNA sequence (gb|DT896403.1|), 
blast E-value=0, identity=99.11% 
               

               
               1638-1748, 1463186 MARC 7BOV Bos taurus cDNA 3', mRNA sequence (gb|DT898590.1|), 
blast E-value=0, identity=99.11% 
               

               
               1638-1748, LB01811.CR_A06 GC_BGC-18 Bos taurus cDNA clone IMAGE 
(gb|EE221128.1|), blast E-value=0, identity=99.11% 
               

               
               1638-1748, LB02217.CR_A12 GC_BGC-22 Bos taurus cDNA clone IMAGE 
(gb|EE239941.1|), blast E-value=0, identity=99.11%

Aligned organism(s): 3 entry(ies)

More info

Aligned organism(s): 3 entry(ies)

Help | Less info


               
               1-1980, gnl|bosTau2|chr23 (29377337-29375343)
               

               
               1-1980, gnl|Hg17|chr6 (21704822-21706828)
               

               
               1-1980, gnl|Mm7|chr13 (28316458-28314467)

Aligned organism(s): 3 entry(ies)

Help | Less info

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


               
               1-1980, gnl|bosTau2|chr23 (29377337-29375343)
               

               
               1-1980, gnl|Hg17|chr6 (21704822-21706828)
               

               
               1-1980, gnl|Mm7|chr13 (28316458-28314467)

Expressed library(ies): 27 entry(ies)

More info

Expressed library(ies): 27 entry(ies)

Help | Less info


               
               ecc (1.38042)
               

               
               cga (0.558191)
               

               
               pty (0.428143)
               

               
               nep (0.36785)
               

               
               eye (0.341006)
               

               
               fat (0.294855)
               

               
               fce (0.271592)
               

               
               ese (0.253004)
               

               
               eep (0.245128)
               

               
               eru (0.240096)
               

               
               med (0.232504)
               

               
               ece (0.229305)
               

               
               cty (0.20816)
               

               
               fcc (0.197785)
               

               
               col (0.195008)
               

               
               mcp (0.170648)
               

               
               lun (0.150489)
               

               
               liv (0.146284)
               

               
               lin (0.145603)
               

               
               lnt (0.142308)
               

               
               nmm (0.132802)
               

               
               ova (0.129132)
               

               
               sug (0.127291)
               

               
               thg (0.126791)
               

               
               tra (0.123092)
               

               
               clu (0.119646)
               

               
               ebs (0.118301)

Expressed library(ies): 27 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


               
               ecc (1.38042)
               

               
               cga (0.558191)
               

               
               pty (0.428143)
               

               
               nep (0.36785)
               

               
               eye (0.341006)
               

               
               fat (0.294855)
               

               
               fce (0.271592)
               

               
               ese (0.253004)
               

               
               eep (0.245128)
               

               
               eru (0.240096)
               

               
               med (0.232504)
               

               
               ece (0.229305)
               

               
               cty (0.20816)
               

               
               fcc (0.197785)
               

               
               col (0.195008)
               

               
               mcp (0.170648)
               

               
               lun (0.150489)
               

               
               liv (0.146284)
               

               
               lin (0.145603)
               

               
               lnt (0.142308)
               

               
               nmm (0.132802)
               

               
               ova (0.129132)
               

               
               sug (0.127291)
               

               
               thg (0.126791)
               

               
               tra (0.123092)
               

               
               clu (0.119646)
               

               
               ebs (0.118301)

	1360-1477, - strand, RNAz p=0.739881
	1638-1806, - strand, RNAz p=0.999355
	1851-1980, - strand, RNAz p=0.930138

	1638-1748, UMC-pd3end3-002-g08 Endometrium gilt D3 of estrous cycle pd3end Sus (gb\|CO988487.1\|), blast E-value=0, identity=100%
	1638-1748, CT02040B1A12 Equine Articular Cartilage cDNA Library Equus caballus (gb\|CX605106.1\|), blast E-value=0, identity=100%
	1638-1748, 1458501 MARC 7BOV Bos taurus cDNA 5', mRNA sequence (gb\|DT896403.1\|), blast E-value=0, identity=99.11%
	1638-1748, 1463186 MARC 7BOV Bos taurus cDNA 3', mRNA sequence (gb\|DT898590.1\|), blast E-value=0, identity=99.11%
	1638-1748, LB01811.CR_A06 GC_BGC-18 Bos taurus cDNA clone IMAGE (gb\|EE221128.1\|), blast E-value=0, identity=99.11%
	1638-1748, LB02217.CR_A12 GC_BGC-22 Bos taurus cDNA clone IMAGE (gb\|EE239941.1\|), blast E-value=0, identity=99.11%

	1-1980, gnl\|bosTau2\|chr23 (29377337-29375343)
	1-1980, gnl\|Hg17\|chr6 (21704822-21706828)
	1-1980, gnl\|Mm7\|chr13 (28316458-28314467)

	ecc (1.38042)
	cga (0.558191)
	pty (0.428143)
	nep (0.36785)
	eye (0.341006)
	fat (0.294855)
	fce (0.271592)
	ese (0.253004)
	eep (0.245128)
	eru (0.240096)
	med (0.232504)
	ece (0.229305)
	cty (0.20816)
	fcc (0.197785)
	col (0.195008)
	mcp (0.170648)
	lun (0.150489)
	liv (0.146284)
	lin (0.145603)
	lnt (0.142308)
	nmm (0.132802)
	ova (0.129132)
	sug (0.127291)
	thg (0.126791)
	tra (0.123092)
	clu (0.119646)
	ebs (0.118301)