BtaINT0122021 @ bosTau6
Intron Retention
Gene
ENSBTAG00000004194 | RALGDS
Description
Bos taurus ral guanine nucleotide dissociation stimulator (RALGDS), mRNA. [Source:RefSeq mRNA;Acc:NM_001101978]
Coordinates
chr11:103135764-103136529:-
Coord C1 exon
chr11:103136336-103136529
Coord A exon
chr11:103136051-103136335
Coord C2 exon
chr11:103135764-103136050
Length
285 bp
Sequences
Splice sites
5' ss Seq
AGGGTGAGG
5' ss Score
7.13
3' ss Seq
TCTCGCATCTCTGTCCCCAGCTC
3' ss Score
9.18
Exon sequences
Seq C1 exon
TGCCATCTCCTCCATCCTGGGCACCTGGCTGGACCAGTACTCGGAGGACTTCTGTCAGCCCCCCGACTTCCCCTGCCTCAGGCAGCTGGTGGCCTACGTGCAGCTCAACATGCCCGGCTCCGACCTGGAGCGCCGGGCCCACCTCCTCCTGGCCCAGCTGGAGCACGCGGACCTCAGCGAGGCAGAGCCGGAGG
Seq A exon
GTGAGGAGGGCGGGGTGGGCGCTGGACTCAGGGGGGGCGCCCCCATGGCAGAGCCAGAGGGTGAGGAGAGTGGGGTAGGCGCTGGACTCGGGGGAGACCCCATGGCAGCTGCTGGGCTGGGAGCAGAGACTAGCCTCAGAGTGCCTGCGTGGGCACCTCCATCAGGGATGATGTTCTGTTGTGGGGTTTGGGGCCAAGGCTTCTCTGGAAGGCAGAGGCGTGCTTTCTGTCTTGGAAGGGCAGGCGTGTCGCTGACCTTTTCTCCTCTCGCATCTCTGTCCCCAG
Seq C2 exon
CTCCAGTTCCAGCTCTGAAACCAGCTGCCGAGCCAGAGCCCACACTAGGCCCAGACCTCGAGCCCGCTCCGGCACTGGCCCCAGAGCCAGCCCTGATGCCAGCTCCGACGCTGCCTTCAGAGCTCGAGCCGGCTCTCTCGCAAACCCTAGAGCTCGAGCCGCCTGCAGCCCCAGACCCCCCCTGGCCTTTGCCCGTGGCTACAGAGAATGGGCTGGGGGAGGAGAAGCCCCACCTCCTGGCATTCCCTCCTGACCTTGTGGCAGAGCAGTTCACGCTCATGGATGCG
VastDB Features
Vast-tools module Information
Secondary ID
ENSBTAG00000004194:ENSBTAT00000032653:4
Average complexity
IR
Mappability confidence:
NA
Protein Impact
Alternative protein isoforms
No structure available
Features
Disorder rate (Iupred):
C1=0.136 A=NA C2=0.823
Domain overlap (PFAM):
C1:
PF0061815=RasGEF_N=PD(31.7=48.5)
A:
NA
C2:
PF0061714=RasGEF=PU(7.4=16.7)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Conservation
Zebrafish
(danRer10)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
ACTCGGAGGACTTCTGTCAGC
R:
TCTAGGGTTTGCGAGAGAGCC
Band lengths:
307-592
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]
SPECIAL DATASETS
- Pre-implantation embryo development