Non-Coding RNA Search

Ss1.1-Bra1-PBL_2_E12.5

Sequence:


               
               CCGGAATTCCCGGGTCGACCCACGCGTCCGCCCCATCCCGCCACATGCCACGGGGCGGCC
AAAAAAGAAGAGGAAAGGGAGACAAGTAATCCGAAGTCGGGTGGACAGAGCAAAGGCTTG
GGAGGAGGAGGAAGCTAAGTAGCAGACAAGACAGCGTGGGCGAAGCCTGGAGGAGGGCTG
GGTGGTGGGCCTTTCTTAGGGTCCCCCTTCCCAAGCTCTTGGCCCCTGCTGAGCTGAGCT
GACCTCCCCCGGCAGGTGTGGGAGCCAGGAAGGGAAGGCCAGGAGAACAGCGATGAGGGC
CCGGGGGGCGAGGGGCGCGAGGCTGAGCAAAGACATGATGTTCTGGGGCAAGCATTTTAT
TTGTTAATACAAGAATAGAAATTCTGCAATAAATATCATCTAATAAATAACATCTCCAAA
TAAATAAATATTAATACAACAAAAAAAAAAAAAAAAGTGGGTGGGGCTGGGGGGCAGGGC
CTGGGGGAGCTGCCCCCGCACCCCAAAATGCTACTG

Sequence:

Distiller database | Help | Less info

Blue-coloured subsequences are predicted RNA structures by RNAz


               
               CCGGAATTCCCGGGTCGACCCACGCGTCCGCCCCATCCCGCCACATGCCACGGGGCGGCC
AAAAAAGAAGAGGAAAGGGAGACAAGTAATCCGAAGTCGGGTGGACAGAGCAAAGGCTTG
GGAGGAGGAGGAAGCTAAGTAGCAGACAAGACAGCGTGGGCGAAGCCTGGAGGAGGGCTG
GGTGGTGGGCCTTTCTTAGGGTCCCCCTTCCCAAGCTCTTGGCCCCTGCTGAGCTGAGCT
GACCTCCCCCGGCAGGTGTGGGAGCCAGGAAGGGAAGGCCAGGAGAACAGCGATGAGGGC
CCGGGGGGCGAGGGGCGCGAGGCTGAGCAAAGACATGATGTTCTGGGGCAAGCATTTTAT
TTGTTAATACAAGAATAGAAATTCTGCAATAAATATCATCTAATAAATAACATCTCCAAA
TAAATAAATATTAATACAACAAAAAAAAAAAAAAAAGTGGGTGGGGCTGGGGGGCAGGGC
CTGGGGGAGCTGCCCCCGCACCCCAAAATGCTACTG

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

More info

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

Help | Less info


               
               391-514, - strand, RNAz p=0.9987

Predicted RNA structure(s): 1 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


               
               391-514, - strand, RNAz p=0.9987

Similar Transcript(s): 6 entry(ies)

More info

Similar Transcript(s): 6 entry(ies)

Help | Less info


               
               391-440, BX630453 pBluescript Lion Mus musculus cDNA clone LIONp462A10412 
(emb|BX630453.1|), blast E-value=2e-18, identity=100% 
               

               
               391-440, UI-R-Y0-uy-f-04-0-UI.s1 UI-R-Y0 Rattus norvegicus cDNA clone 
(gb|AI575844.1|), blast E-value=2e-18, identity=100% 
               

               
               391-440, UI-R-FF0-cpk-g-17-0-UI.s1 NCI_CGAP_FF0 Rattus norvegicus cDNA clone 
(gb|BQ782413.1|), blast E-value=2e-18, identity=100% 
               

               
               391-440, 970739 MARC 4BOV Bos taurus cDNA 3', mRNA sequence (gb|CK848034.1|), 
blast E-value=2e-18, identity=100% 
               

               
               391-440, UMC-bend_0A02-027-c05 Day 16 Uterus from a pregnant animal bend 
(gb|CO728033.1|), blast E-value=2e-18, identity=100% 
               

               
               391-440, 1266957 MARC 7BOV Bos taurus cDNA 3', mRNA sequence (gb|DN523460.1|), 
blast E-value=2e-18, identity=100%

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


               
               391-440, BX630453 pBluescript Lion Mus musculus cDNA clone LIONp462A10412 
(emb|BX630453.1|), blast E-value=2e-18, identity=100% 
               

               
               391-440, UI-R-Y0-uy-f-04-0-UI.s1 UI-R-Y0 Rattus norvegicus cDNA clone 
(gb|AI575844.1|), blast E-value=2e-18, identity=100% 
               

               
               391-440, UI-R-FF0-cpk-g-17-0-UI.s1 NCI_CGAP_FF0 Rattus norvegicus cDNA clone 
(gb|BQ782413.1|), blast E-value=2e-18, identity=100% 
               

               
               391-440, 970739 MARC 4BOV Bos taurus cDNA 3', mRNA sequence (gb|CK848034.1|), 
blast E-value=2e-18, identity=100% 
               

               
               391-440, UMC-bend_0A02-027-c05 Day 16 Uterus from a pregnant animal bend 
(gb|CO728033.1|), blast E-value=2e-18, identity=100% 
               

               
               391-440, 1266957 MARC 7BOV Bos taurus cDNA 3', mRNA sequence (gb|DN523460.1|), 
blast E-value=2e-18, identity=100%

Homologous human UTR: 1 entry(ies)

More info

Homologous human UTR: 1 entry(ies)

Help | Less info


               
               5' of NM_013246, -

Homologous human UTR: 1 entry(ies)

Help | Less info

Human gene identifier and UTR site,
human gene reading direction


               
               5' of NM_013246, -

Aligned organism(s): 3 entry(ies)

More info

Aligned organism(s): 3 entry(ies)

Help | Less info


               
               271-514, gnl|bosTau2|chr29 (36276341-36276100)
               

               
               271-514, gnl|Hg17|chr11 (66888169-66888390)
               

               
               271-514, gnl|Mm7|chr19 (4118359-4118127)

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


               
               271-514, gnl|bosTau2|chr29 (36276341-36276100)
               

               
               271-514, gnl|Hg17|chr11 (66888169-66888390)
               

               
               271-514, gnl|Mm7|chr19 (4118359-4118127)

Expressed library(ies): 3 entry(ies)

More info

Expressed library(ies): 3 entry(ies)

Help | Less info


               
               eye (0.170503)
               

               
               cag (0.151194)
               

               
               nmm (0.132802)

Expressed library(ies): 3 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


               
               eye (0.170503)
               

               
               cag (0.151194)
               

               
               nmm (0.132802)

	391-440, BX630453 pBluescript Lion Mus musculus cDNA clone LIONp462A10412 (emb\|BX630453.1\|), blast E-value=2e-18, identity=100%
	391-440, UI-R-Y0-uy-f-04-0-UI.s1 UI-R-Y0 Rattus norvegicus cDNA clone (gb\|AI575844.1\|), blast E-value=2e-18, identity=100%
	391-440, UI-R-FF0-cpk-g-17-0-UI.s1 NCI_CGAP_FF0 Rattus norvegicus cDNA clone (gb\|BQ782413.1\|), blast E-value=2e-18, identity=100%
	391-440, 970739 MARC 4BOV Bos taurus cDNA 3', mRNA sequence (gb\|CK848034.1\|), blast E-value=2e-18, identity=100%
	391-440, UMC-bend_0A02-027-c05 Day 16 Uterus from a pregnant animal bend (gb\|CO728033.1\|), blast E-value=2e-18, identity=100%
	391-440, 1266957 MARC 7BOV Bos taurus cDNA 3', mRNA sequence (gb\|DN523460.1\|), blast E-value=2e-18, identity=100%

	271-514, gnl\|bosTau2\|chr29 (36276341-36276100)
	271-514, gnl\|Hg17\|chr11 (66888169-66888390)
	271-514, gnl\|Mm7\|chr19 (4118359-4118127)