GgaINT0015024 @ galGal3
Intron Retention
Gene
ENSGALG00000021238 | E1C495_CHICK
Description
NA
Coordinates
chr14:2262282-2262925:+
Coord C1 exon
chr14:2262282-2262439
Coord A exon
chr14:2262440-2262751
Coord C2 exon
chr14:2262752-2262925
Length
312 bp
Sequences
Splice sites
5' ss Seq
AATGTAAGT
5' ss Score
8.62
3' ss Seq
TTCTTTTAATTTCTTATTAGTAT
3' ss Score
5.82
Exon sequences
Seq C1 exon
GGGAACCTTTCAGCCTCAGGTCCTTCAGCATTGCTCCAATCAACATCACCTTCCTCATGCTCTTTGGGGACAGGTTTGACTATAAGGATCCAACATTTCTCACTCTCCTAAGACTCATAGATGAAGTTATGGTTCTTCTGGGATCTCCGTACTTGAAT
Seq A exon
GTAAGTAACCTATCCCAAAGGTTAGCATTTTTTCCTGGCCAGTCTACCAGTTACTGGTGGAGGAGCAGTTTCCACTGAACAGTGAAAAAGCTTAAAATTGAGTTGTACTGCATAAAGGCTGATAGATTGCAAAGCCCATTGTGAAAATGAGCCCAGTGTGAAAATGAGCCCTCCAGGACTCCCAGGGATGCACAGATAGTACTACAGACAAAACTCACCTCATCCATCGTGCCTTAGGAAAAAGCTATTTCAGCATGTTGATTCTCCTGCAGACCTAACACTTCTCTCTTTTTTCTTTTAATTTCTTATTAG
Seq C2 exon
TATTTCAATTTCTACCCATTCCTTGGATTTCTTTTCAAAACCCACAAGATTTTGCTTAAGAAAATAGAAGATGTGCGTGTCATTATAAGGCAATACATGAAGGCGAGCAGGGAAGATATCAATGAGAACAGTGTAAGGAGCTACACTGATGCCCTGGTATTCAAGCAGCATGAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000021238:ENSGALT00000006237:4
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:
PF0006717=p450=FE(12.0=100)
A:
NA
C2:
PF0006717=p450=FE(13.2=100)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Associated events
Other assemblies
Conservation
Mouse
(mm10)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
AACCTTTCAGCCTCAGGTCCT
R:
ATGCTGCTTGAATACCAGGGC
Band lengths:
326-638
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]