Non-Coding RNA Search

Ss1.1-Thy1-THY010117C09.5

Sequence:


               
               TTGGTGTCCCAGCTGAAAGGGAAATTCTGATATTAGTCAGGAACCCCGTGCCACCAGGCA
GTGGCCCCAGCTACCAAGACAGAGGGACAAGGAGGAATAGTGCCAGTGGTGGGGTATATC
TTTGCATCAGAGGCCAGGAAGCCGAGGCTCTGATCCCAGGTTAGAAAGAGCCTCCGGTGC
TCGCCCAGGGGGACCGAACCCCCCACGTCCCCATTGGAGAACCCCAAGGGTGAGGTGGAA
CAGAAATGGCCTGCCCATCCCTTCAAAGTCGAAGCCCCTTCAACCAGAGCTCCAGTCACT
TCTTGGTGACACTTGGGAGAGCTTTGGGCCCAGGGGAAACCCAGCCTCTTCCTCTGAGAG
CTGAGCCCCAGGTGACCTGTCCCCAGTGGCATCAGCGGTCCCCAAAGGCAGCTTCCCTCC
TGCTTGCCACTGAGGGCTGCCTGTTCTCCACATGAACTCTCAGAGTCTCACACACACAGG
ACTAGTCTGATGTTTTTAAAGTCAACAAGGACCAAAACCGACTCCCTCCACCCTCACGCC
TAAGCCTGCCGTGGGCCTGGTACTCTGCTGTCCTGGCCCAGGCAGCTCCATCACTTCTGT
CCTTCCTCCAGGACTGAGATGTCCTAGCTGTGGGGCAGGGTCCCACCTCTACTGCTCCCC
TGCAGGCTCACAGCACAGCGGCATCAAAGGGAGGCCCGTTCAAGGGGGAGCATCCTCCCC
CGCTTTCTCCCAACTCTTCAAAAGGGAAGTCAAAGCACAGGTCCCCGGGACCCATGATCC
CTAGACCCTGACACACTGGTTTTCAAACCAGGTGCTGCAGAACCCCTGGTGTTCCACAGA
GCTTTGTCAGGGGCCGCTATGGTGGGAAGATGGGGGTGGGGGCAAAGGCTAGGTCTCCAG
GCCTCCCCCATTCCCGTTTCCACCGGAACAACTCCGCTTTTATCTGTCTTGCCTGTAGAG
GTTTCACCTTGAAACTTTCTTTTGAAGACAAATGTCAAACCACCATTCTGAGGTTCGATC
TCAGACCAGCAAGCACAGGTTCTATTCTTGCTTTGTACGTGGGAATGGCTGTCGCATTCC
AATACAAAGTATCTTTGTTTTGGAACTTGGGTCTCAGACCCAGACACAAGCATTTGCTTA
CACACACACACACAAACACATACACACGCATTTGATGGTTTTGTAACCCATCTCCCCGAA
ACTCTGGCCTGGGGTTGATTTGGGCAGGGGCCCCGGTGCTGCGAGGAGGGGTCTTGGCCC
TGAAATTGGCCCAGGCAGCATGGGGGACTGTGGAGGAAGCCAAGAGGCCTGACCCCCACC
CTAGGACCTGTGTCTGTGCCCTGGCGGGACACCCCACTTCCCTGGCCC

Sequence:

Distiller database | Help | Less info

Blue-coloured subsequences are predicted RNA structures by RNAz


               
               TTGGTGTCCCAGCTGAAAGGGAAATTCTGATATTAGTCAGGAACCCCGTGCCACCAGGCA
GTGGCCCCAGCTACCAAGACAGAGGGACAAGGAGGAATAGTGCCAGTGGTGGGGTATATC
TTTGCATCAGAGGCCAGGAAGCCGAGGCTCTGATCCCAGGTTAGAAAGAGCCTCCGGTGC
TCGCCCAGGGGGACCGAACCCCCCACGTCCCCATTGGAGAACCCCAAGGGTGAGGTGGAA
CAGAAATGGCCTGCCCATCCCTTCAAAGTCGAAGCCCCTTCAACCAGAGCTCCAGTCACT
TCTTGGTGACACTTGGGAGAGCTTTGGGCCCAGGGGAAACCCAGCCTCTTCCTCTGAGAG
CTGAGCCCCAGGTGACCTGTCCCCAGTGGCATCAGCGGTCCCCAAAGGCAGCTTCCCTCC
TGCTTGCCACTGAGGGCTGCCTGTTCTCCACATGAACTCTCAGAGTCTCACACACACAGG
ACTAGTCTGATGTTTTTAAAGTCAACAAGGACCAAAACCGACTCCCTCCACCCTCACGCC
TAAGCCTGCCGTGGGCCTGGTACTCTGCTGTCCTGGCCCAGGCAGCTCCATCACTTCTGT
CCTTCCTCCAGGACTGAGATGTCCTAGCTGTGGGGCAGGGTCCCACCTCTACTGCTCCCC
TGCAGGCTCACAGCACAGCGGCATCAAAGGGAGGCCCGTTCAAGGGGGAGCATCCTCCCC
CGCTTTCTCCCAACTCTTCAAAAGGGAAGTCAAAGCACAGGTCCCCGGGACCCATGATCC
CTAGACCCTGACACACTGGTTTTCAAACCAGGTGCTGCAGAACCCCTGGTGTTCCACAGA
GCTTTGTCAGGGGCCGCTATGGTGGGAAGATGGGGGTGGGGGCAAAGGCTAGGTCTCCAG
GCCTCCCCCATTCCCGTTTCCACCGGAACAACTCCGCTTTTATCTGTCTTGCCTGTAGAG
GTTTCACCTTGAAACTTTCTTTTGAAGACAAATGTCAAACCACCATTCTGAGGTTCGATC
TCAGACCAGCAAGCACAGGTTCTATTCTTGCTTTGTACGTGGGAATGGCTGTCGCATTCC
AATACAAAGTATCTTTGTTTTGGAACTTGGGTCTCAGACCCAGACACAAGCATTTGCTTA
CACACACACACACAAACACATACACACGCATTTGATGGTTTTGTAACCCATCTCCCCGAA
ACTCTGGCCTGGGGTTGATTTGGGCAGGGGCCCCGGTGCTGCGAGGAGGGGTCTTGGCCC
TGAAATTGGCCCAGGCAGCATGGGGGACTGTGGAGGAAGCCAAGAGGCCTGACCCCCACC
CTAGGACCTGTGTCTGTGCCCTGGCGGGACACCCCACTTCCCTGGCCC

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

More info

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

Help | Less info


               
               32-141, + strand, RNAz p=0.755304
               

               
               120-211, - strand, RNAz p=0.665176
               

               
               486-1164, - strand, RNAz p=0.999993
               

               
               1196-1313, + strand, RNAz p=0.847612

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


               
               32-141, + strand, RNAz p=0.755304
               

               
               120-211, - strand, RNAz p=0.665176
               

               
               486-1164, - strand, RNAz p=0.999993
               

               
               1196-1313, + strand, RNAz p=0.847612

Similar Transcript(s): 6 entry(ies)

More info

Similar Transcript(s): 6 entry(ies)

Help | Less info


               
               739-1095, AV595012 Bos taurus cartilage fetus Bos taurus cDNA clone 
(dbj|AV595012.1|), blast E-value=0, identity=84.89% 
               

               
               495-1100, BP162754 full-length enriched swine cDNA library, adult thymus Sus 
(dbj|BP162754.1|), blast E-value=0, identity=99.5% 
               

               
               739-1135, AGENCOURT_6721472 NIH_MGC_71 Homo sapiens cDNA clone IMAGE 
(gb|BM905866.1|), blast E-value=0, identity=83.92% 
               

               
               739-1109, 1254538 MARC 7BOV Bos taurus cDNA 5', mRNA sequence (gb|DN516102.1|), 
blast E-value=0, identity=85.19% 
               

               
               739-1109, 1255306 MARC 7BOV Bos taurus cDNA 3', mRNA sequence (gb|DN516778.1|), 
blast E-value=0, identity=85.19% 
               

               
               739-721, LB02716.CR_N04 GC_BGC-27 Bos taurus cDNA clone IMAGE (gb|DV890367.1|), 
blast E-value=4e-27, identity=82.7%

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


               
               739-1095, AV595012 Bos taurus cartilage fetus Bos taurus cDNA clone 
(dbj|AV595012.1|), blast E-value=0, identity=84.89% 
               

               
               495-1100, BP162754 full-length enriched swine cDNA library, adult thymus Sus 
(dbj|BP162754.1|), blast E-value=0, identity=99.5% 
               

               
               739-1135, AGENCOURT_6721472 NIH_MGC_71 Homo sapiens cDNA clone IMAGE 
(gb|BM905866.1|), blast E-value=0, identity=83.92% 
               

               
               739-1109, 1254538 MARC 7BOV Bos taurus cDNA 5', mRNA sequence (gb|DN516102.1|), 
blast E-value=0, identity=85.19% 
               

               
               739-1109, 1255306 MARC 7BOV Bos taurus cDNA 3', mRNA sequence (gb|DN516778.1|), 
blast E-value=0, identity=85.19% 
               

               
               739-721, LB02716.CR_N04 GC_BGC-27 Bos taurus cDNA clone IMAGE (gb|DV890367.1|), 
blast E-value=4e-27, identity=82.7%

Aligned organism(s): 14 entry(ies)

More info

Aligned organism(s): 14 entry(ies)

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               1-211, gnl|bosTau2|chr15 (34924865-34924647)
               

               
               1-211, gnl|canFam2|chr21 (26305365-26304280)
               

               
               1-211, gnl|dasNov1|scaffold_23825 (2807-1787)
               

               
               1-211, gnl|echTel1|scaffold_315783 (78006-79035)
               

               
               1-211, gnl|hg17|chr11 (74650878-74651989)
               

               
               1-211, gnl|Hg17|chr11 (74651131-74650877)
               

               
               1-211, gnl|loxAfr1|scaffold_38803 (6637-5547)
               

               
               1-211, gnl|mm7|chr7 (95635585-95634688)
               

               
               1-211, gnl|oryCun1|scaffold_214121 (42582-41686)
               

               
               1-211, gnl|panTro1|chr9 (75933882-75934993)
               

               
               1-211, gnl|rheMac2|chr14 (73425332-73426438)
               

               
               1-211, gnl|rn3|chr1 (157019270-157018309)
               


               
               486-1367, gnl|bosTau2|chr15 (34924440-34923529)
               

               
               486-1367, gnl|Hg17|chr11 (74650561-74649667)

Aligned organism(s): 14 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


               
               1-211, gnl|bosTau2|chr15 (34924865-34924647)
               

               
               1-211, gnl|canFam2|chr21 (26305365-26304280)
               

               
               1-211, gnl|dasNov1|scaffold_23825 (2807-1787)
               

               
               1-211, gnl|echTel1|scaffold_315783 (78006-79035)
               

               
               1-211, gnl|hg17|chr11 (74650878-74651989)
               

               
               1-211, gnl|Hg17|chr11 (74651131-74650877)
               

               
               1-211, gnl|loxAfr1|scaffold_38803 (6637-5547)
               

               
               1-211, gnl|mm7|chr7 (95635585-95634688)
               

               
               1-211, gnl|oryCun1|scaffold_214121 (42582-41686)
               

               
               1-211, gnl|panTro1|chr9 (75933882-75934993)
               

               
               1-211, gnl|rheMac2|chr14 (73425332-73426438)
               

               
               1-211, gnl|rn3|chr1 (157019270-157018309)
               


               
               486-1367, gnl|bosTau2|chr15 (34924440-34923529)
               

               
               486-1367, gnl|Hg17|chr11 (74650561-74649667)

Expressed library(ies): 2 entry(ies)

More info

Expressed library(ies): 2 entry(ies)

Help | Less info


               
               hyp (0.142837)
               

               
               hlv (0.139256)

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


               
               hyp (0.142837)
               

               
               hlv (0.139256)

	32-141, + strand, RNAz p=0.755304
	120-211, - strand, RNAz p=0.665176
	486-1164, - strand, RNAz p=0.999993
	1196-1313, + strand, RNAz p=0.847612

	739-1095, AV595012 Bos taurus cartilage fetus Bos taurus cDNA clone (dbj\|AV595012.1\|), blast E-value=0, identity=84.89%
	495-1100, BP162754 full-length enriched swine cDNA library, adult thymus Sus (dbj\|BP162754.1\|), blast E-value=0, identity=99.5%
	739-1135, AGENCOURT_6721472 NIH_MGC_71 Homo sapiens cDNA clone IMAGE (gb\|BM905866.1\|), blast E-value=0, identity=83.92%
	739-1109, 1254538 MARC 7BOV Bos taurus cDNA 5', mRNA sequence (gb\|DN516102.1\|), blast E-value=0, identity=85.19%
	739-1109, 1255306 MARC 7BOV Bos taurus cDNA 3', mRNA sequence (gb\|DN516778.1\|), blast E-value=0, identity=85.19%
	739-721, LB02716.CR_N04 GC_BGC-27 Bos taurus cDNA clone IMAGE (gb\|DV890367.1\|), blast E-value=4e-27, identity=82.7%

	1-211, gnl\|bosTau2\|chr15 (34924865-34924647)
	1-211, gnl\|canFam2\|chr21 (26305365-26304280)
	1-211, gnl\|dasNov1\|scaffold_23825 (2807-1787)
	1-211, gnl\|echTel1\|scaffold_315783 (78006-79035)
	1-211, gnl\|hg17\|chr11 (74650878-74651989)
	1-211, gnl\|Hg17\|chr11 (74651131-74650877)
	1-211, gnl\|loxAfr1\|scaffold_38803 (6637-5547)
	1-211, gnl\|mm7\|chr7 (95635585-95634688)
	1-211, gnl\|oryCun1\|scaffold_214121 (42582-41686)
	1-211, gnl\|panTro1\|chr9 (75933882-75934993)
	1-211, gnl\|rheMac2\|chr14 (73425332-73426438)
	1-211, gnl\|rn3\|chr1 (157019270-157018309)

	486-1367, gnl\|bosTau2\|chr15 (34924440-34923529)
	486-1367, gnl\|Hg17\|chr11 (74650561-74649667)