Non-Coding RNA Search

Ss1.1-Mixn-0036b08.5.5

Sequence:


               
               ACAGGGTGTCTTTAATTCCAACCAGATAGAGTATAATATCAATACTGCTAAATCTGCATG
TCCTCTGTGTGACTGATATAATAGCGTTGCTACTTCATTTTTTTAAGACAAAATGAAAGC
AAAATAATAGAATTCCAATTTATTGGTGTAGATAATCTAGTTGGGAATACTTTTTAAGTC
TCACGTTCCCCTTTAATATTCATAATTGACTCATGTTTAAAACACTTTAATTTACAAATT
AAATTGCAGTTGGGAGCATTAGATTTAGTTTAGACTTAGGTGGGTAGCAATACCAGTAAA
CTTTTAAACTACATAACTTTTTGCAACCACAAAACCTGTAATACGCTGTACAGTAACAAG
TGTTGGCATTATCAGTTGAACTGTAAATATAAAATGCTTCTTCCAGTTAGTCTCTATGAT
GATTAAGTTTCTAAAATTTATCTGAACACCATTCAGAAACTTGTTTTGGGGAATTTGATA
GTTATTGATGTACATCTGTTAAACTGATGACAGACATAACTCATCATTCCCCAGAAACCT
TTTTTGATTACAGTATCTAACATTTTGCCTCCTCTTTTTTGGTTTTGCTGGTTATAAAGG
TTTGGATTGGAGAGGGCTCACTGGATCCCAATCCTTGGAGCTGGATCATTGGATTCAAAT
CATAATGTGGATAGGATAGGGAGGATGAATTACAAGGATTCATGGAGCGGGATCAGATTA
CCAGGAACATAGGAGTGGATTCCTGCCCCAACCAAACCGCATTCGTGTGGATTTTTTTTT
TTTTTTTTTTTTATTCAACTTAATTGGCTATTCCAAAGATTTTTTTTTTTTTCCTATTTT
TGACGATTGGAGCCCTTAAGATGCACGATGGAATTGTGTTTTGCATTTTTGGTAAAAGGA
GCAAAGCGAGGACCTGGAGATAAACGCTGGAGCAATCTCCTTGGAAGGATTCAGCACGAG
TAGATGGTAAACATTTAAAGGGGAAAGGGGGGGTTTGTTTAAAATAGTAAATCAGTAAGT
CACTTCTAAATTTAAAGAAAACAAAATTGGAGTTGAAGAATAAGTAGGTTTCCAATTGGC
TATTGCCATTTTTCTTTGAAAAAAATAAACATTTTTTAAAAAACTAAAAAAAAAAAAAAA

Sequence:

Distiller database | Help | Less info

Blue-coloured subsequences are predicted RNA structures by RNAz


               
               ACAGGGTGTCTTTAATTCCAACCAGATAGAGTATAATATCAATACTGCTAAATCTGCATG
TCCTCTGTGTGACTGATATAATAGCGTTGCTACTTCATTTTTTTAAGACAAAATGAAAGC
AAAATAATAGAATTCCAATTTATTGGTGTAGATAATCTAGTTGGGAATACTTTTTAAGTC
TCACGTTCCCCTTTAATATTCATAATTGACTCATGTTTAAAACACTTTAATTTACAAATT
AAATTGCAGTTGGGAGCATTAGATTTAGTTTAGACTTAGGTGGGTAGCAATACCAGTAAA
CTTTTAAACTACATAACTTTTTGCAACCACAAAACCTGTAATACGCTGTACAGTAACAAG
TGTTGGCATTATCAGTTGAACTGTAAATATAAAATGCTTCTTCCAGTTAGTCTCTATGAT
GATTAAGTTTCTAAAATTTATCTGAACACCATTCAGAAACTTGTTTTGGGGAATTTGATA
GTTATTGATGTACATCTGTTAAACTGATGACAGACATAACTCATCATTCCCCAGAAACCT
TTTTTGATTACAGTATCTAACATTTTGCCTCCTCTTTTTTGGTTTTGCTGGTTATAAAGG
TTTGGATTGGAGAGGGCTCACTGGATCCCAATCCTTGGAGCTGGATCATTGGATTCAAAT
CATAATGTGGATAGGATAGGGAGGATGAATTACAAGGATTCATGGAGCGGGATCAGATTA
CCAGGAACATAGGAGTGGATTCCTGCCCCAACCAAACCGCATTCGTGTGGATTTTTTTTT
TTTTTTTTTTTTATTCAACTTAATTGGCTATTCCAAAGATTTTTTTTTTTTTCCTATTTT
TGACGATTGGAGCCCTTAAGATGCACGATGGAATTGTGTTTTGCATTTTTGGTAAAAGGA
GCAAAGCGAGGACCTGGAGATAAACGCTGGAGCAATCTCCTTGGAAGGATTCAGCACGAG
TAGATGGTAAACATTTAAAGGGGAAAGGGGGGGTTTGTTTAAAATAGTAAATCAGTAAGT
CACTTCTAAATTTAAAGAAAACAAAATTGGAGTTGAAGAATAAGTAGGTTTCCAATTGGC
TATTGCCATTTTTCTTTGAAAAAAATAAACATTTTTTAAAAAACTAAAAAAAAAAAAAAA

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

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

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               431-550, - strand, RNAz p=0.981206
               

               
               986-1104, + strand, RNAz p=0.506233

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


               
               431-550, - strand, RNAz p=0.981206
               

               
               986-1104, + strand, RNAz p=0.506233

Predicted microRNA(s): 2 entry(ies)

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Predicted microRNA(s): 2 entry(ies)

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               462-587, - strand, RNAmicro p=0.999745
               

               
               453-566, + strand, RNAmicro p=0.999711

Predicted microRNA(s): 2 entry(ies)

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PigEST conread start position and end position of the predicted microRNA,
PigEST conread reading direction of prediction,
miRNA classificator p of RNAmicro


               
               462-587, - strand, RNAmicro p=0.999745
               

               
               453-566, + strand, RNAmicro p=0.999711

Similar Transcript(s): 6 entry(ies)

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Similar Transcript(s): 6 entry(ies)

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               431-550, UMN32H08 Canine Brain cDNA Library Canis familiaris cDNA 5' similar 
(gb|BI395357.1|), blast E-value=0, identity=100% 
               

               
               431-550, CH3#072_D10MF Canine heart normalized cDNA Library in pBluescript 
(gb|CF411233.1|), blast E-value=0, identity=100% 
               

               
               431-550, io63d02.b1 Whole Heart Library (DOGEST5) Canis familiaris cDNA, 
(gb|CX013107.1|), blast E-value=0, identity=100% 
               

               
               431-550, LIB30321_051_G03_SP6_1 LIB30321 Canis familiaris cDNA clone 
(gb|DN269522.1|), blast E-value=0, identity=100% 
               

               
               431-550, nba09c06.y1 Guinea pig eye minus retina and lens. Unnormalized 
(gb|EB366723.1|), blast E-value=0, identity=99.17% 
               

               
               431-550, nba30g03.y1 Guinea pig eye minus retina and lens. Unnormalized 
(gb|EB368392.1|), blast E-value=0, identity=99.17%

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


               
               431-550, UMN32H08 Canine Brain cDNA Library Canis familiaris cDNA 5' similar 
(gb|BI395357.1|), blast E-value=0, identity=100% 
               

               
               431-550, CH3#072_D10MF Canine heart normalized cDNA Library in pBluescript 
(gb|CF411233.1|), blast E-value=0, identity=100% 
               

               
               431-550, io63d02.b1 Whole Heart Library (DOGEST5) Canis familiaris cDNA, 
(gb|CX013107.1|), blast E-value=0, identity=100% 
               

               
               431-550, LIB30321_051_G03_SP6_1 LIB30321 Canis familiaris cDNA clone 
(gb|DN269522.1|), blast E-value=0, identity=100% 
               

               
               431-550, nba09c06.y1 Guinea pig eye minus retina and lens. Unnormalized 
(gb|EB366723.1|), blast E-value=0, identity=99.17% 
               

               
               431-550, nba30g03.y1 Guinea pig eye minus retina and lens. Unnormalized 
(gb|EB368392.1|), blast E-value=0, identity=99.17%

Homologous human UTR: 1 entry(ies)

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Homologous human UTR: 1 entry(ies)

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               5' of NM_006924, +

Homologous human UTR: 1 entry(ies)

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Human gene identifier and UTR site,
human gene reading direction


               
               5' of NM_006924, +

Aligned organism(s): 6 entry(ies)

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Aligned organism(s): 6 entry(ies)

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               1-1126, gnl|bosTau2|chr19 (4233140-4232019)
               

               
               1-1126, gnl|Hg17|chr17 (53436961-53435853)
               

               
               1-1126, gnl|Mm7|chr11 (88120309-88121401)
               


               
               598-1028, gnl|bosTau2|chr11 (56166748-56167160)
               

               
               598-1028, gnl|Hg17|chr17 (53436363-53435949)
               

               
               598-1028, gnl|Mm7|chr11 (88120883-88121303)

Aligned organism(s): 6 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


               
               1-1126, gnl|bosTau2|chr19 (4233140-4232019)
               

               
               1-1126, gnl|Hg17|chr17 (53436961-53435853)
               

               
               1-1126, gnl|Mm7|chr11 (88120309-88121401)
               


               
               598-1028, gnl|bosTau2|chr11 (56166748-56167160)
               

               
               598-1028, gnl|Hg17|chr17 (53436363-53435949)
               

               
               598-1028, gnl|Mm7|chr11 (88120883-88121303)

Expressed library(ies): 20 entry(ies)

More info

Expressed library(ies): 20 entry(ies)

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               lnt (0.569233)
               

               
               eye (0.341006)
               

               
               nca (0.273748)
               

               
               fce (0.271592)
               

               
               cbe (0.239234)
               

               
               med (0.232504)
               

               
               nep (0.183925)
               

               
               sin (0.174948)
               

               
               fhi (0.169578)
               

               
               fco (0.157208)
               

               
               pty (0.142714)
               

               
               csk (0.140746)
               

               
               nmm (0.132802)
               

               
               thg (0.126791)
               

               
               ese (0.126502)
               

               
               eep (0.122564)
               

               
               ebs (0.118301)
               

               
               jca (0.11396)
               

               
               jej (0.0989218)
               

               
               eje (0.0988338)

Expressed library(ies): 20 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


               
               lnt (0.569233)
               

               
               eye (0.341006)
               

               
               nca (0.273748)
               

               
               fce (0.271592)
               

               
               cbe (0.239234)
               

               
               med (0.232504)
               

               
               nep (0.183925)
               

               
               sin (0.174948)
               

               
               fhi (0.169578)
               

               
               fco (0.157208)
               

               
               pty (0.142714)
               

               
               csk (0.140746)
               

               
               nmm (0.132802)
               

               
               thg (0.126791)
               

               
               ese (0.126502)
               

               
               eep (0.122564)
               

               
               ebs (0.118301)
               

               
               jca (0.11396)
               

               
               jej (0.0989218)
               

               
               eje (0.0988338)

	431-550, - strand, RNAz p=0.981206
	986-1104, + strand, RNAz p=0.506233

	462-587, - strand, RNAmicro p=0.999745
	453-566, + strand, RNAmicro p=0.999711

	431-550, UMN32H08 Canine Brain cDNA Library Canis familiaris cDNA 5' similar (gb\|BI395357.1\|), blast E-value=0, identity=100%
	431-550, CH3#072_D10MF Canine heart normalized cDNA Library in pBluescript (gb\|CF411233.1\|), blast E-value=0, identity=100%
	431-550, io63d02.b1 Whole Heart Library (DOGEST5) Canis familiaris cDNA, (gb\|CX013107.1\|), blast E-value=0, identity=100%
	431-550, LIB30321_051_G03_SP6_1 LIB30321 Canis familiaris cDNA clone (gb\|DN269522.1\|), blast E-value=0, identity=100%
	431-550, nba09c06.y1 Guinea pig eye minus retina and lens. Unnormalized (gb\|EB366723.1\|), blast E-value=0, identity=99.17%
	431-550, nba30g03.y1 Guinea pig eye minus retina and lens. Unnormalized (gb\|EB368392.1\|), blast E-value=0, identity=99.17%

	1-1126, gnl\|bosTau2\|chr19 (4233140-4232019)
	1-1126, gnl\|Hg17\|chr17 (53436961-53435853)
	1-1126, gnl\|Mm7\|chr11 (88120309-88121401)

	598-1028, gnl\|bosTau2\|chr11 (56166748-56167160)
	598-1028, gnl\|Hg17\|chr17 (53436363-53435949)
	598-1028, gnl\|Mm7\|chr11 (88120883-88121303)

	lnt (0.569233)
	eye (0.341006)
	nca (0.273748)
	fce (0.271592)
	cbe (0.239234)
	med (0.232504)
	nep (0.183925)
	sin (0.174948)
	fhi (0.169578)
	fco (0.157208)
	pty (0.142714)
	csk (0.140746)
	nmm (0.132802)
	thg (0.126791)
	ese (0.126502)
	eep (0.122564)
	ebs (0.118301)
	jca (0.11396)
	jej (0.0989218)
	eje (0.0988338)