BtaINT0121562 @ bosTau6
Intron Retention
Gene
ENSBTAG00000015098 | RABEPK
Description
Bos taurus Rab9 effector protein with kelch motifs (RABEPK), mRNA. [Source:RefSeq mRNA;Acc:NM_001035399]
Coordinates
chr11:96113252-96113995:+
Coord C1 exon
chr11:96113252-96113401
Coord A exon
chr11:96113402-96113680
Coord C2 exon
chr11:96113681-96113995
Length
279 bp
Sequences
Splice sites
5' ss Seq
TAGGTGAGC
5' ss Score
7.96
3' ss Seq
TTTTTCTCCCCCCAAAATAGAAA
3' ss Score
7.2
Exon sequences
Seq C1 exon
GTGACATGAAGTGGCAGAAGCTAAGGCCCACTGGGGCAGCTCCCACAGGCTGTGCTGCCCACTCAGCTGTGGCTGTGGGGAAACACCTGTATGTCTTCGGAGGAATGACTCCCACAGGAGCCCTGAATACAATGTACCAGTATCACATAG
Seq A exon
GTGAGCAGATGTTCACTGTGGGTCTTTAAACAAGTATCACCCTTCTTTGAAACTATCACAATGCTTCGGTCTTTCAATTTGGCCACTCCACATCCAAGGCCGAAGGAATAAAAACCAGACTTTCAGGGAATGACATCATCAAAGCTGTAAGAGTATCATTAGGGTACCCGACCCCCCTGCCCCCGACTTTTCCTGTTTCTTTTAGGGCTCAGGTGATATAGCACATCACTGAACATTTTTGGAAATTTTTAACAGACTTTTTTTCTCCCCCCAAAATAG
Seq C2 exon
AAAAGCAGCATTGGACCTTGCTTAAATTTGAGAATTCTCCACCCACTGGACGGTTGGACCATTCCATGTGTATCATTCCGTGGCCAGGGACGTGTACTTCTGAGAAAGAAGATTCAAATTCTGCCACTGTAAACCGTGATGCTGAGAAAGGGGATTCCACTGAGAAAGGAGTGACTCAAGGTGGTGACTCACAGGAGGAAAGTCAGGCTGACACACTGCTCTGTTTCGTGTTCGGTGGAATGAATACAGAGGGGGAAATCTATGACGATTGTATTGTGACTGCAGTTGATTAATAAAACCCATGTTTTTACTGCT
VastDB Features
Vast-tools module Information
Secondary ID
ENSBTAG00000015098:ENSBTAT00000020093:6
Average complexity
IR
Mappability confidence:
NA
Protein Impact
Alternative protein isoforms
No structure available
Features
Disorder rate (Iupred):
C1=0.059 A=NA C2=0.320
Domain overlap (PFAM):
C1:
PF134181=Kelch_4=PD(30.0=29.4),PF134181=Kelch_4=PU(66.7=62.7)
A:
NA
C2:
PF134181=Kelch_4=PD(31.2=15.3)
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:
GAAGTGGCAGAAGCTAAGGCC
R:
CCCTTTCTCAGCATCACGGTT
Band lengths:
295-574
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]
SPECIAL DATASETS
- Pre-implantation embryo development