GgaINT0072507 @ galGal3
Intron Retention
Gene
ENSGALG00000014372 | Q6TQF9_CHICK
Description
NA
Coordinates
chr4:75895476-75896238:-
Coord C1 exon
chr4:75896104-75896238
Coord A exon
chr4:75895605-75896103
Coord C2 exon
chr4:75895476-75895604
Length
499 bp
Sequences
Splice sites
5' ss Seq
CAGGTAGAC
5' ss Score
6.89
3' ss Seq
ATAATGTATTTGTTTTGCAGAAC
3' ss Score
8.96
Exon sequences
Seq C1 exon
GCAACGTGGCTTCACTTGGAAACAAAGTGGAAATTCAACCTGCATTTTCCACAATAGCGTTGATAGATGAGACAAGGCAAGAAGAGGACCCATGGGCTCTGCCAGAACTGCAGGACACTGGAGTCAAGTGGTCAG
Seq A exon
GTAGACATTTCTCAGTAAATAAGTTACGTGCACTTATTTTTTCCATCATTTCTGATGTCTGAATTTAGGATTTGAGCAGTTTTCAGATGTAGACTTTACACTTTGTCTCACGTTCCCCAGTGGTGAAGCTGGGATATGACATTCAGGCTGCTAAGAAGGAATTGGAAACCATACTGCTTACCTTCCTTAAAGCAAAGGGGATATATGGAAAACAGTCCAAAAGTAGTGTGATCTTATTTTCAGGCTCATATTGAACTTCCTTTATTCAGTAAGATGAATGTGTAAAACTAAGGGTCATTCTGAGACTTCATTAGGAAAATGAACTGCCTGCTTCTACAGTTAAAATTTGGATTAAGAAGAGCACTTTTGGATTTAATTACATGCAGGGGTCACAACACTGTACTTAGCTCCATAGCCTCTTCTTCTGCACTAAACTGTTCTGGAGAGAACACCAGATAAATAAACATGTTTCCTTATGCATAATGTATTTGTTTTGCAG
Seq C2 exon
AACTGGATAGAAAAGGAAAAATCATTCGTGTACTCTATGGGATTGGAAAGTTCATTATGTTGCTTGGATTACTCTACTTGTTCGTGTGTTCTCTGGATGTACTGAGCTCTGCTTTTCAACTAGTAGGAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000014372:ENSGALT00000023222:3
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.065 A=NA C2=0.000
Domain overlap (PFAM):
C1:
NO
A:
NA
C2:
PF0269010=Na_Pi_cotrans=PU(12.1=38.6)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Associated events
Other assemblies
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
GCAACGTGGCTTCACTTGGAA
R:
CCTACTAGTTGAAAAGCAGAGCTCA
Band lengths:
262-761
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]