GgaINT1010515 @ galGal4
Intron Retention
Gene
ENSGALG00000017378 | CRTAC1
Description
cartilage acidic protein 1 [Source:RefSeq peptide;Acc:NP_001073680]
Coordinates
chr6:21829356-21829808:+
Coord C1 exon
chr6:21829356-21829499
Coord A exon
chr6:21829500-21829695
Coord C2 exon
chr6:21829696-21829808
Length
196 bp
Sequences
Splice sites
5' ss Seq
TGGGTGAGT
5' ss Score
8.73
3' ss Seq
TTTTCTTGTTCTCCATGCAGCTC
3' ss Score
10.75
Exon sequences
Seq C1 exon
ACACCAACGAGTGTGCTGAGTTCCCCTTTGTCTGCCCCCGGGAGAAGCCCATCTGCATCAACACCTATGGCGGGTACCGCTGCCGCAGCAACAAGCGCTGCGCCCGTGGCTTCGAGCCCAATGAGGATGGCACAGCATGTGTGG
Seq A exon
GTGAGTGATGGTGGGGATACACTGGAGCAGCACCTTGGGATGGTGATGTACCCATCCAGGAACAGTCACCCTTGCACCCTCCAGCGGTTGCCTATACCCCAGCCCCACAGCCACCTGCCTCCATTCCTGCTGGTCCACTTGCTGCTGACCACCCAACTCTCTTTCTTTCCCGCTCCTTTTCTTGTTCTCCATGCAG
Seq C2 exon
CTCAGGTGGCCTTTTTTGGGGGATACCCCTCCACCGGGAGCTGGCCTTGGGCCCCCCAAGGTGTTCTCCTCTCTCTGGGCTTCGGACTCTGCCTTTGCCTCTATGCACTTTAA
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000017378:ENSGALT00000028063:14
Average complexity
IR
Mappability confidence:
NA
Protein Impact
Alternative protein isoforms
No structure available
Features
Disorder rate (Iupred):
C1=0.000 A=NA C2=0.000
Domain overlap (PFAM):
C1:
PF0764510=EGF_CA=WD(100=95.9)
A:
NA
C2:
NO
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Conservation
Cow
(bosTau6)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
CACCAACGAGTGTGCTGAGTT
R:
AGTGCATAGAGGCAAAGGCAG
Band lengths:
252-448
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]