BtaINT0129893 @ bosTau6
Intron Retention
Gene
ENSBTAG00000001352 | SDCCAG3
Description
Bos taurus serologically defined colon cancer antigen 3 (SDCCAG3), mRNA. [Source:RefSeq mRNA;Acc:NM_001046140]
Coordinates
chr11:103912908-103913506:-
Coord C1 exon
chr11:103913433-103913506
Coord A exon
chr11:103913020-103913432
Coord C2 exon
chr11:103912908-103913019
Length
413 bp
Sequences
Splice sites
5' ss Seq
AATGTATGT
5' ss Score
5.87
3' ss Seq
CAGGCCTTTTCCTTAACAAGGGT
3' ss Score
3.99
Exon sequences
Seq C1 exon
CTGAAAGATGAGAATTCTAAGCTAAGAAGAAAGCTGACTGAGATTCAGAGCTTCTCTGAAACTCAAACAGAAAT
Seq A exon
GTATGTAAGCTTTTGGATAGGCTCGCAATTCAACCATGTCCCGACCCTCAGAAACCACTGTGAAAGCGATAATGAAGTATGGGGGTTGGACTGAGCCCGGGTTTTATTGCACTAAATCCTCGGTGTCAGATACGTTTCTCATGTTCTGTGTTAAAGTTTAGTTGAAAACAGAGCCAAACCAGCCACTCTTGATGGTGGCGCAGGGGGCTGTCAGATAGCCCCCCCGCCGCCCTGGGCACCCCGACCGTGAGCTGGCCTGTGTCTAGCTCCAAGGCTGTGCTCCTCCAGCTGCGGCTTTAACCCTGGGCTCCTGTGGCTTTTATCTGATCAATCCAGTTAAAACTTCTGATAGTCTGTTACGCTCAGAATTAGTCACAGGAGTTGTTGATAACCCAGGCCTTTTCCTTAACAAG
Seq C2 exon
GGTGAGGACGCTTGAGCGGAAGTTAGAAGCGAAAATGATCAAGGAGGAGAGTGACTATCACGACCTGGAGTCGGTGGTGCAGCAGGTGGAGCAGAATCTGGAGCTCATGACT
VastDB Features
Vast-tools module Information
Secondary ID
ENSBTAG00000001352:ENSBTAT00000055628:5
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.160 A=NA C2=0.204
Domain overlap (PFAM):
C1:
PF041569=IncA=FE(14.9=100),PF079026=Gp58=FE(13.9=100),PF131661=AAA_13=FE(16.6=100),PF0076914=ERM=FE(14.9=100),PF057016=WEMBL=FE(16.2=100),PF0026115=Tropomyosin=FE(20.5=100),PF149321=HAUS-augmin3=FE(16.1=100),PF107214=DUF2514=PU(16.2=64.0)
A:
NA
C2:
PF041569=IncA=FE(23.0=100),PF079026=Gp58=FE(21.4=100),PF131661=AAA_13=FE(25.5=100),PF0076914=ERM=FE(23.0=100),PF057016=WEMBL=FE(25.0=100),PF0026115=Tropomyosin=FE(31.6=100),PF149321=HAUS-augmin3=FE(24.8=100),PF107214=DUF2514=FE(37.4=100)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Conservation
Human
(hg38)
No conservation detected
Chicken
(galGal4)
No conservation detected
Zebrafish
(danRer10)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
No suggested primer sequences
R:
No suggested primer sequences
Band lengths:
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]
SPECIAL DATASETS
- Pre-implantation embryo development