BtaINT0074550 @ bosTau6
Intron Retention
Gene
ENSBTAG00000020527 | IDH1
Description
Bos taurus isocitrate dehydrogenase 1 (NADP+), soluble (IDH1), mRNA. [Source:RefSeq mRNA;Acc:NM_181012]
Coordinates
chr2:96947450-96949061:-
Coord C1 exon
chr2:96948884-96949061
Coord A exon
chr2:96947602-96948883
Coord C2 exon
chr2:96947450-96947601
Length
1282 bp
Sequences
Splice sites
5' ss Seq
CAAGTAACT
5' ss Score
4.45
3' ss Seq
TTCTCTTTCTCGTTTCTCAGGCA
3' ss Score
10.45
Exon sequences
Seq C1 exon
AGAGTGGTGGTGTTGCCATGGGGATGTACAATCAAGATAAGTCAATCGAAGATTTTGCACACAGTTCTTTCCAGATGGCTTTGTCTAAGAACTGGCCTTTGTATCTGAGCACCAAAAACACTATTCTGAAGAAATACGATGGACGTTTTAAAGACATCTTTCAGGAGATATATGACAA
Seq A exon
GTAACTACAGTTCTTTTTTTTCCTTTTTTTGGTCACAAATGGCGCCATTTATAGTATAGAATTTGTATGCTTATCCCTTTGATTCTGTGACAAATTGAGTGAAAACCATCACTATCTCATTAAGACAAGGACAGAACTGAGATTTAACAAGGGTTGAAACAAAACTCTTGAGTTGCTTTTAGAAGGGGAATGTGTTCTCAGATAAATGTCCCACATTTTTTTCAGAGCCAGGATTATTTAATGTGTGAGTAAATGTGCCCTGTTAGTGATAGAAAGTTCTGATTTTCCACATGTGTAAGTTTCTGAATTGGGCCTATTCCATTTTCTTTCTTTGTAATATTTATTTATTTCACCAGGTCTTAGTTGCTCACGCAGGGTCTTTAGTTGCAGCACATGGAATCTAATTCCCCAACCAAGGATCAAACCTGGGGCCCCTGCACTGGGAGCTCAGAGTCTTAGCCACTGGACCACCAGGGAAGACCCCATTTCCATTCCTTCTGAAGCCCACTATTATGATTTAAAACTCTCCTTTTTGAAATTCCCTGGCAGTCCAGTGGTTAGGACTCCACACTTTCACTGAGAAAGGTGTGGGTTCAGTCCCTGGTCAGGAAACTAAGATCTTGCAAGCTGTGGGGCACAGCCAATAATTTAAATAAAGAAAATAAATAAAACTTTGCTTTAATGGAGTTGTTTGAACTTAAATCTACATTTGTAATCATTTTACATTCAACAGTGCTTGAGTACTTGTTAACTTTTAAGGTGGCATTCCTCCCTTTAGATACAAGCATTTAGACCAGGGCTGGGATTTTAGGTATCCTTCCCAAGACATTTTAATACCTCCTTCCATTCCCTATCTATATCAAACTTGGGAGCTGTCCAGGTTTCCTGAATGATACTGGGCAGTAAAATAGTCTTTCTCTACCCCCTTATATTCTTTTTTTAATATATATCCTAAGGCAAGCTCAATCCCAAGAAACCGGTGAGTAGTATATTGAAAACTGTAAAAGTAGTATTAATACTTGGAACACTGTCGTCTTGCTTAATTCTCACATCTCTGCCAAGTGGATGAAATCACCCTTACAGATGGGAAAATGGGAGTTTCATAGCTAGAAAATGAGTGGGCAGGGATTTCAGCCCATGTCTGTTAGATCCCCAAATTTGTGTTGCTTCCACTAAAACATGCTGCTTCCAGCCCCACCTCCAGCCTTTCAGAGAGGCAGATGGTATCCCAACAAAACCAATTTCCCTTGTCTATTGTTCTCTTCTCTTTCTCGTTTCTCAG
Seq C2 exon
GCAGTACAAATCTGAGTTTGAAGCTCAGAATATCTGGTATGAGCACAGGCTCATTGATGACATGGTGGCCCAAGCTATGAAATCGGAGGGGGGCTTCATTTGGGCCTGTAAGAACTATGATGGGGACGTGCAGTCGGACTCCGTGGCCCAAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSBTAG00000020527:ENSBTAT00000027348:6
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.000 A=NA C2=0.000
Domain overlap (PFAM):
C1:
PF0018015=Iso_dh=FE(15.0=100),PF0292310=BamHI=PU(61.4=90.0)
A:
NA
C2:
PF0018015=Iso_dh=FE(13.0=100),PF0292310=BamHI=PD(37.5=63.5)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
AGAGTGGTGGTGTTGCCA
R:
GAGTCCGACTGCACGTCCC
Band lengths:
319-1601
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]