Non-Coding RNA Search

Ss1.1-rspc029_m13.5

Sequence:


               
               CACCTTTTGCTCAGTCACAGCTGTTGAAAGCAGCTGGCTGCAAGATGTATAGTGGTGTGC
CCCTTGTCATATACTCTCAGCATATCTTTTTTTCTTTGGCTTTGCATGGCTTTTCTTCAG
GATCTTTCCTGTTGTAGTCTAATTATTTTCATAGAATGGTGACTTTATTCGTGCTAATAA
CATAATAGTCATTAATAGCATGTTCCAGTCAGGCTTAATCTAAGTATTAATTTTCTTCCT
GGGTGCTTTTTTGTACTGATGAGTGTCTCACTTTGTGCCCATGTTTTGCATGCAGTGACT
CATGCATGGTTTTCTTAACTAGCTAATGTCCATAATTTGGTCCATACAAAAGTGGACTTT
CAACAGCATTCTTTAATAATGTGAGGGAAGCATGAACCTCAGACTTCTGGCACTATTACA
TGAACTGGCTTGATGATAGCTCATGAAGTAGCTTGATAATAAGTAGCATATCTAATAGTT
CACATTTCACCTGTGTGTGCAATGCCTTTTTTGGGGGAGAGGGAGTATTCATTGGTAATG
AACATATAGTTGGGGAATAAAGCACTAAATCCAGCCCTTTTTGTGTGGTGTCCTTTTGAT
ACAGCTAAGTTTTTCGTAATGTATACCTGAAAAAGTGAAGTAAAAAACACCAAAATATGT
TATGACTTTGATTTAAATTCATTATGCAGTGTACATTTAGTTCATTTCTTTCAGTCTCCA
GACAGGAGTATATCTAAACATCTAATTTAATGTGCACTGTATATTGTTTTATATGAATGT
TTTATTTTATATACCACATGCAGAAATGTCCATATGCACTATTTAAATGTTTTAAATAAT
ATATTCCTTCTTTATAATGCTAAATCTATATGAGTACCATATTTTTATAAGTCAGTGGCC
TGACTGGTTTCATTTTAGAATTAACAGCTGCTTCATGATGTTGGTTATTCTCTATTAATG
TTTGGCTGCAAATAGAATAGGTAGAAGTGGCATGGCAGCACCGTGTGACAGTATTGTGTG
TCATAGTTCAGCAGTAAGTGGTAGAATCAGGCAGTTTGTGATAGTTTTACTTTGGTACAA
GTAAAAACTGTATATCTATATACAAATAATATATAGATATATATGACCACCAGTATAACT
GCATTGCTGTGTCTGGCACTTCATTGTATAGACTTTTGTAATAAAAGAACTTTAATGTTC
TAAAAAAAAAAA

Sequence:

Distiller database | Help | Less info

Blue-coloured subsequences are predicted RNA structures by RNAz


               
               CACCTTTTGCTCAGTCACAGCTGTTGAAAGCAGCTGGCTGCAAGATGTATAGTGGTGTGC
CCCTTGTCATATACTCTCAGCATATCTTTTTTTCTTTGGCTTTGCATGGCTTTTCTTCAG
GATCTTTCCTGTTGTAGTCTAATTATTTTCATAGAATGGTGACTTTATTCGTGCTAATAA
CATAATAGTCATTAATAGCATGTTCCAGTCAGGCTTAATCTAAGTATTAATTTTCTTCCT
GGGTGCTTTTTTGTACTGATGAGTGTCTCACTTTGTGCCCATGTTTTGCATGCAGTGACT
CATGCATGGTTTTCTTAACTAGCTAATGTCCATAATTTGGTCCATACAAAAGTGGACTTT
CAACAGCATTCTTTAATAATGTGAGGGAAGCATGAACCTCAGACTTCTGGCACTATTACA
TGAACTGGCTTGATGATAGCTCATGAAGTAGCTTGATAATAAGTAGCATATCTAATAGTT
CACATTTCACCTGTGTGTGCAATGCCTTTTTTGGGGGAGAGGGAGTATTCATTGGTAATG
AACATATAGTTGGGGAATAAAGCACTAAATCCAGCCCTTTTTGTGTGGTGTCCTTTTGAT
ACAGCTAAGTTTTTCGTAATGTATACCTGAAAAAGTGAAGTAAAAAACACCAAAATATGT
TATGACTTTGATTTAAATTCATTATGCAGTGTACATTTAGTTCATTTCTTTCAGTCTCCA
GACAGGAGTATATCTAAACATCTAATTTAATGTGCACTGTATATTGTTTTATATGAATGT
TTTATTTTATATACCACATGCAGAAATGTCCATATGCACTATTTAAATGTTTTAAATAAT
ATATTCCTTCTTTATAATGCTAAATCTATATGAGTACCATATTTTTATAAGTCAGTGGCC
TGACTGGTTTCATTTTAGAATTAACAGCTGCTTCATGATGTTGGTTATTCTCTATTAATG
TTTGGCTGCAAATAGAATAGGTAGAAGTGGCATGGCAGCACCGTGTGACAGTATTGTGTG
TCATAGTTCAGCAGTAAGTGGTAGAATCAGGCAGTTTGTGATAGTTTTACTTTGGTACAA
GTAAAAACTGTATATCTATATACAAATAATATATAGATATATATGACCACCAGTATAACT
GCATTGCTGTGTCTGGCACTTCATTGTATAGACTTTTGTAATAAAAGAACTTTAATGTTC
TAAAAAAAAAAA

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

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

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               651-807, + strand, RNAz p=0.996226
               

               
               1001-1203, - strand, RNAz p=0.997976

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


               
               651-807, + strand, RNAz p=0.996226
               

               
               1001-1203, - strand, RNAz p=0.997976

Similar Transcript(s): 6 entry(ies)

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Similar Transcript(s): 6 entry(ies)

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               1003-1198, AJ821118 KN206 Bos sp. cDNA clone C0006018p17, mRNA sequence 
(emb|AJ821118.1|), blast E-value=4e-21, identity=98.31% 
               

               
               1003-1198, 768256 MARC 6BOV Bos taurus cDNA 3', mRNA sequence (gb|CB534889.1|), 
blast E-value=4e-21, identity=98.31% 
               

               
               1003-1201, 970402 MARC 4BOV Bos taurus cDNA 3', mRNA sequence (gb|CK847734.1|), 
blast E-value=6e-23, identity=98.39% 
               

               
               1003-1201, UMC-bend_0A02-015-c09 Day 18 Uterus from a pregnant animal bend Bos 
(gb|CN654622.1|), blast E-value=6e-23, identity=98.39% 
               

               
               1003-1200, LIB3173-046-Q1-K1-D10 LIB3173 Canis familiaris cDNA clone 
(gb|DN327200.1|), blast E-value=3e-22, identity=98.36% 
               

               
               1003-1090, 1464367 MARC 7BOV Bos taurus cDNA 3', mRNA sequence (gb|DT887664.1|), 
blast E-value=3e-31, identity=95.45%

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


               
               1003-1198, AJ821118 KN206 Bos sp. cDNA clone C0006018p17, mRNA sequence 
(emb|AJ821118.1|), blast E-value=4e-21, identity=98.31% 
               

               
               1003-1198, 768256 MARC 6BOV Bos taurus cDNA 3', mRNA sequence (gb|CB534889.1|), 
blast E-value=4e-21, identity=98.31% 
               

               
               1003-1201, 970402 MARC 4BOV Bos taurus cDNA 3', mRNA sequence (gb|CK847734.1|), 
blast E-value=6e-23, identity=98.39% 
               

               
               1003-1201, UMC-bend_0A02-015-c09 Day 18 Uterus from a pregnant animal bend Bos 
(gb|CN654622.1|), blast E-value=6e-23, identity=98.39% 
               

               
               1003-1200, LIB3173-046-Q1-K1-D10 LIB3173 Canis familiaris cDNA clone 
(gb|DN327200.1|), blast E-value=3e-22, identity=98.36% 
               

               
               1003-1090, 1464367 MARC 7BOV Bos taurus cDNA 3', mRNA sequence (gb|DT887664.1|), 
blast E-value=3e-31, identity=95.45%

Homologous human UTR: 1 entry(ies)

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Homologous human UTR: 1 entry(ies)

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               5' of BC056887, +

Homologous human UTR: 1 entry(ies)

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Human gene identifier and UTR site,
human gene reading direction


               
               5' of BC056887, +

Aligned organism(s): 3 entry(ies)

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Aligned organism(s): 3 entry(ies)

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               6-1203, gnl|bosTau2|chr7 (34514397-34513211)
               

               
               6-1203, gnl|Hg17|chr5 (137302745-137301548)
               

               
               6-1203, gnl|Mm7|chr18 (34817184-34816036)

Aligned organism(s): 3 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


               
               6-1203, gnl|bosTau2|chr7 (34514397-34513211)
               

               
               6-1203, gnl|Hg17|chr5 (137302745-137301548)
               

               
               6-1203, gnl|Mm7|chr18 (34817184-34816036)

Expressed library(ies): 25 entry(ies)

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Expressed library(ies): 25 entry(ies)

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               gul (0.532765)
               

               
               aor (0.390549)
               

               
               kid (0.389206)
               

               
               eye (0.341006)
               

               
               ski (0.29347)
               

               
               lin (0.291206)
               

               
               fce (0.271592)
               

               
               sug (0.254582)
               

               
               thg (0.253582)
               

               
               bla (0.248694)
               

               
               cbe (0.239234)
               

               
               jca (0.22792)
               

               
               spc (0.226732)
               

               
               cmu (0.186393)
               

               
               sin (0.174948)
               

               
               fco (0.157208)
               

               
               liv (0.146284)
               

               
               spl (0.143184)
               

               
               pla (0.133672)
               

               
               ova (0.129132)
               

               
               ese (0.126502)
               

               
               tra (0.123092)
               

               
               eru (0.120048)
               

               
               pgl (0.118483)
               

               
               jej (0.0989218)

Expressed library(ies): 25 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


               
               gul (0.532765)
               

               
               aor (0.390549)
               

               
               kid (0.389206)
               

               
               eye (0.341006)
               

               
               ski (0.29347)
               

               
               lin (0.291206)
               

               
               fce (0.271592)
               

               
               sug (0.254582)
               

               
               thg (0.253582)
               

               
               bla (0.248694)
               

               
               cbe (0.239234)
               

               
               jca (0.22792)
               

               
               spc (0.226732)
               

               
               cmu (0.186393)
               

               
               sin (0.174948)
               

               
               fco (0.157208)
               

               
               liv (0.146284)
               

               
               spl (0.143184)
               

               
               pla (0.133672)
               

               
               ova (0.129132)
               

               
               ese (0.126502)
               

               
               tra (0.123092)
               

               
               eru (0.120048)
               

               
               pgl (0.118483)
               

               
               jej (0.0989218)

	651-807, + strand, RNAz p=0.996226
	1001-1203, - strand, RNAz p=0.997976

	1003-1198, AJ821118 KN206 Bos sp. cDNA clone C0006018p17, mRNA sequence (emb\|AJ821118.1\|), blast E-value=4e-21, identity=98.31%
	1003-1198, 768256 MARC 6BOV Bos taurus cDNA 3', mRNA sequence (gb\|CB534889.1\|), blast E-value=4e-21, identity=98.31%
	1003-1201, 970402 MARC 4BOV Bos taurus cDNA 3', mRNA sequence (gb\|CK847734.1\|), blast E-value=6e-23, identity=98.39%
	1003-1201, UMC-bend_0A02-015-c09 Day 18 Uterus from a pregnant animal bend Bos (gb\|CN654622.1\|), blast E-value=6e-23, identity=98.39%
	1003-1200, LIB3173-046-Q1-K1-D10 LIB3173 Canis familiaris cDNA clone (gb\|DN327200.1\|), blast E-value=3e-22, identity=98.36%
	1003-1090, 1464367 MARC 7BOV Bos taurus cDNA 3', mRNA sequence (gb\|DT887664.1\|), blast E-value=3e-31, identity=95.45%

	6-1203, gnl\|bosTau2\|chr7 (34514397-34513211)
	6-1203, gnl\|Hg17\|chr5 (137302745-137301548)
	6-1203, gnl\|Mm7\|chr18 (34817184-34816036)

	gul (0.532765)
	aor (0.390549)
	kid (0.389206)
	eye (0.341006)
	ski (0.29347)
	lin (0.291206)
	fce (0.271592)
	sug (0.254582)
	thg (0.253582)
	bla (0.248694)
	cbe (0.239234)
	jca (0.22792)
	spc (0.226732)
	cmu (0.186393)
	sin (0.174948)
	fco (0.157208)
	liv (0.146284)
	spl (0.143184)
	pla (0.133672)
	ova (0.129132)
	ese (0.126502)
	tra (0.123092)
	eru (0.120048)
	pgl (0.118483)
	jej (0.0989218)