Non-Coding RNA Search

Ss1.1-rebs35c_l20.5

Sequence:


               
               GGAGGAGGGGGGCGCCCTGAAGACCCCTTGGGCAGGGGCTCCTCTTCACCTGGGCCAGAG
CCAGTTCCTGCCGTTCACTCAGAGAGAGGGAGATGGAGATTCCTGGTCCTCAGGGGAGGA
CTAGAGAGGGAGCTCCCCTAGGGCACTGAGGACTTGTGTTGGGGGGAGATGTCCCCAAGC
GCCCCTCCCACTGAGGGGGCTGCACCCTTAACTATGATCTCTTGACCTGCCCTTTCTGTC
TCAGAGGCCAGGCTGGCCAAGGTGAGATGGGTGAGGCAAAGGGACCTGTCCCACGAATGG
AGGCTCCAGGAGTAAACTCTCAGACCCTCAGACCCTGCAGAGGGGGCCATCCTGCCTGCC
TTGTCCCCTGAGGCTGAAGCCAACTGAATCTCAATAACTAGGGCCCCTCTTCTGGGCACC
CCTTCCCCTCCTCCCATCAGCTGGAAAATCTCTGAGGGGGGCGGGGGCTCTGCCTTTCTT
CACAGGGCGGGGCTTGGGCCGGCATCTGGTTAGTGGCTAATGAGGGTGAGGGGGTGCTCC
TGTGTCCTGATCCCCCCATATTCCTGCCTTGTTGTGGCCCCCTCTGCCTCATCCCTGCCT
GAATAAAGTACTGCCTCCACTTAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAA
AAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAA

Sequence:

Distiller database | Help | Less info

Blue-coloured subsequences are predicted RNA structures by RNAz


               
               GGAGGAGGGGGGCGCCCTGAAGACCCCTTGGGCAGGGGCTCCTCTTCACCTGGGCCAGAG
CCAGTTCCTGCCGTTCACTCAGAGAGAGGGAGATGGAGATTCCTGGTCCTCAGGGGAGGA
CTAGAGAGGGAGCTCCCCTAGGGCACTGAGGACTTGTGTTGGGGGGAGATGTCCCCAAGC
GCCCCTCCCACTGAGGGGGCTGCACCCTTAACTATGATCTCTTGACCTGCCCTTTCTGTC
TCAGAGGCCAGGCTGGCCAAGGTGAGATGGGTGAGGCAAAGGGACCTGTCCCACGAATGG
AGGCTCCAGGAGTAAACTCTCAGACCCTCAGACCCTGCAGAGGGGGCCATCCTGCCTGCC
TTGTCCCCTGAGGCTGAAGCCAACTGAATCTCAATAACTAGGGCCCCTCTTCTGGGCACC
CCTTCCCCTCCTCCCATCAGCTGGAAAATCTCTGAGGGGGGCGGGGGCTCTGCCTTTCTT
CACAGGGCGGGGCTTGGGCCGGCATCTGGTTAGTGGCTAATGAGGGTGAGGGGGTGCTCC
TGTGTCCTGATCCCCCCATATTCCTGCCTTGTTGTGGCCCCCTCTGCCTCATCCCTGCCT
GAATAAAGTACTGCCTCCACTTAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAA
AAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAA

Predicted RNA structure(s): 1 entry(ies)

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Predicted RNA structure(s): 1 entry(ies)

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               1-192, + strand, RNAz p=0.999999

Predicted RNA structure(s): 1 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


               
               1-192, + strand, RNAz p=0.999999

Similar Transcript(s): 6 entry(ies)

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Similar Transcript(s): 6 entry(ies)

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               1-192, POSM0100001_G12 porcine skeletal muscle cDNA library (PoSM) Sus 
(gb|BM190078.1|), blast E-value=0, identity=100% 
               

               
               1-128, BE04008A1G08.f3 BE04 Normalized and Subtracted bovine embryonic and 
(gb|CN440266.1|), blast E-value=1e-33, identity=89.84% 
               

               
               1-128, BovGen_09105 normal cattle brain Bos taurus cDNA clone (gb|CO880780.1|), 
blast E-value=1e-33, identity=89.84% 
               

               
               1-128, BovGen_09220 normal cattle brain Bos taurus cDNA clone (gb|CO880895.1|), 
blast E-value=1e-33, identity=89.84% 
               

               
               1-128, LB03023.CR_K01 GC_BGC-30 Bos taurus cDNA clone IMAGE (gb|DV931728.1|), 
blast E-value=1e-33, identity=89.84% 
               

               
               1-128, 001121BFMA003525HT BFMA Bos taurus cDNA, mRNA sequence (gb|DY198964.1|), 
blast E-value=1e-33, identity=89.84%

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


               
               1-192, POSM0100001_G12 porcine skeletal muscle cDNA library (PoSM) Sus 
(gb|BM190078.1|), blast E-value=0, identity=100% 
               

               
               1-128, BE04008A1G08.f3 BE04 Normalized and Subtracted bovine embryonic and 
(gb|CN440266.1|), blast E-value=1e-33, identity=89.84% 
               

               
               1-128, BovGen_09105 normal cattle brain Bos taurus cDNA clone (gb|CO880780.1|), 
blast E-value=1e-33, identity=89.84% 
               

               
               1-128, BovGen_09220 normal cattle brain Bos taurus cDNA clone (gb|CO880895.1|), 
blast E-value=1e-33, identity=89.84% 
               

               
               1-128, LB03023.CR_K01 GC_BGC-30 Bos taurus cDNA clone IMAGE (gb|DV931728.1|), 
blast E-value=1e-33, identity=89.84% 
               

               
               1-128, 001121BFMA003525HT BFMA Bos taurus cDNA, mRNA sequence (gb|DY198964.1|), 
blast E-value=1e-33, identity=89.84%

Homologous human UTR: 1 entry(ies)

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Homologous human UTR: 1 entry(ies)

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               5' of NM_006617, +

Homologous human UTR: 1 entry(ies)

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Human gene identifier and UTR site,
human gene reading direction


               
               5' of NM_006617, +

Aligned organism(s): 11 entry(ies)

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Aligned organism(s): 11 entry(ies)

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               1-448, gnl|bosTau2|chr3 (11007521-11007081)
               

               
               1-448, gnl|Hg17|chr1 (153452310-153451876)
               


               
               507-627, gnl|bosTau2|chr3 (11006980-11006860)
               

               
               507-627, gnl|canFam2|chr7 (44274731-44274408)
               

               
               507-627, gnl|hg17|chr1 (153451385-153451803)
               

               
               507-627, gnl|Hg17|chr1 (153451744-153451628)
               

               
               507-627, gnl|mm7|chr3 (88094385-88094114)
               

               
               507-627, gnl|Mm7|chr3 (88094143-88094253)
               

               
               507-627, gnl|oryCun1|scaffold_178525 (7-363)
               

               
               507-627, gnl|rheMac2|chr1 (135277075-135277482)
               

               
               507-627, gnl|rn3|chr2 (180011188-180010922)

Aligned organism(s): 11 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


               
               1-448, gnl|bosTau2|chr3 (11007521-11007081)
               

               
               1-448, gnl|Hg17|chr1 (153452310-153451876)
               


               
               507-627, gnl|bosTau2|chr3 (11006980-11006860)
               

               
               507-627, gnl|canFam2|chr7 (44274731-44274408)
               

               
               507-627, gnl|hg17|chr1 (153451385-153451803)
               

               
               507-627, gnl|Hg17|chr1 (153451744-153451628)
               

               
               507-627, gnl|mm7|chr3 (88094385-88094114)
               

               
               507-627, gnl|Mm7|chr3 (88094143-88094253)
               

               
               507-627, gnl|oryCun1|scaffold_178525 (7-363)
               

               
               507-627, gnl|rheMac2|chr1 (135277075-135277482)
               

               
               507-627, gnl|rn3|chr2 (180011188-180010922)

Expressed library(ies): 11 entry(ies)

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Expressed library(ies): 11 entry(ies)

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               ese (0.885516)
               

               
               eep (0.490256)
               

               
               elu (0.385356)
               

               
               fce (0.271592)
               

               
               fbs (0.175346)
               

               
               mcp (0.170648)
               

               
               nje (0.16592)
               

               
               hyp (0.142837)
               

               
               eru (0.120048)
               

               
               ebs (0.118301)
               

               
               ecc (0.115035)

Expressed library(ies): 11 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


               
               ese (0.885516)
               

               
               eep (0.490256)
               

               
               elu (0.385356)
               

               
               fce (0.271592)
               

               
               fbs (0.175346)
               

               
               mcp (0.170648)
               

               
               nje (0.16592)
               

               
               hyp (0.142837)
               

               
               eru (0.120048)
               

               
               ebs (0.118301)
               

               
               ecc (0.115035)

	1-192, POSM0100001_G12 porcine skeletal muscle cDNA library (PoSM) Sus (gb\|BM190078.1\|), blast E-value=0, identity=100%
	1-128, BE04008A1G08.f3 BE04 Normalized and Subtracted bovine embryonic and (gb\|CN440266.1\|), blast E-value=1e-33, identity=89.84%
	1-128, BovGen_09105 normal cattle brain Bos taurus cDNA clone (gb\|CO880780.1\|), blast E-value=1e-33, identity=89.84%
	1-128, BovGen_09220 normal cattle brain Bos taurus cDNA clone (gb\|CO880895.1\|), blast E-value=1e-33, identity=89.84%
	1-128, LB03023.CR_K01 GC_BGC-30 Bos taurus cDNA clone IMAGE (gb\|DV931728.1\|), blast E-value=1e-33, identity=89.84%
	1-128, 001121BFMA003525HT BFMA Bos taurus cDNA, mRNA sequence (gb\|DY198964.1\|), blast E-value=1e-33, identity=89.84%

	1-448, gnl\|bosTau2\|chr3 (11007521-11007081)
	1-448, gnl\|Hg17\|chr1 (153452310-153451876)

	507-627, gnl\|bosTau2\|chr3 (11006980-11006860)
	507-627, gnl\|canFam2\|chr7 (44274731-44274408)
	507-627, gnl\|hg17\|chr1 (153451385-153451803)
	507-627, gnl\|Hg17\|chr1 (153451744-153451628)
	507-627, gnl\|mm7\|chr3 (88094385-88094114)
	507-627, gnl\|Mm7\|chr3 (88094143-88094253)
	507-627, gnl\|oryCun1\|scaffold_178525 (7-363)
	507-627, gnl\|rheMac2\|chr1 (135277075-135277482)
	507-627, gnl\|rn3\|chr2 (180011188-180010922)

	ese (0.885516)
	eep (0.490256)
	elu (0.385356)
	fce (0.271592)
	fbs (0.175346)
	mcp (0.170648)
	nje (0.16592)
	hyp (0.142837)
	eru (0.120048)
	ebs (0.118301)
	ecc (0.115035)