GgaINT0102357 @ galGal3
Intron Retention
Gene
ENSGALG00000006438 | F1P1C8_CHICK
Description
NA
Coordinates
chr2:8487360-8488406:-
Coord C1 exon
chr2:8488246-8488406
Coord A exon
chr2:8488124-8488245
Coord C2 exon
chr2:8487360-8488123
Length
122 bp
Sequences
Splice sites
5' ss Seq
CAGGTGGGG
5' ss Score
6.92
3' ss Seq
AGGTTGTCTGCCGTTTCTAGGTG
3' ss Score
9.59
Exon sequences
Seq C1 exon
CTCAGGCGCAGTCCAACCTCCTGGGGAAGTGCCGGCGGCCGCGCACCGCCTTCACCAGCCAGCAGCTGCTGGAGCTGGAGCACCAGTTCAAACTCAACAAGTACCTCTCCCGGCCCAAGCGCTTCGAGGTGGCCACGTCGCTGATGCTCACCGAGACGCAG
Seq A exon
GTGGGGAGAGAAATAAGGAAAAGCGGTGATAATTAAAAAGGAAAAAAAGGGGATGGGGAGGGCACGGGGGGGAGGGGTGACACCGAGGGGCGGTGGATGAGGAGGTTGTCTGCCGTTTCTAG
Seq C2 exon
GTGAAGATTTGGTTCCAGAACCGCCGCATGAAATGGAAGCGCAGCAAAAAGGCGAAGGAGCAGGCGGCGCAGGAGGCAGAGAAGCAGAAAGGAGGAGGAGGAGGAGAGGACAAAGCGGCCGAGGAACTGCTGCTGCCCGGCCCGGAGAAAGGCGGCGGGAGGCGGCTGAGGGAGCTGCCCGACAGCGAGCCCGAGGACGAGGAGGAGGAAGAAGAGGAGGAAGAGGAGGCCGAGGCCGGGCGGTGCTGCCCCTACCACTCCTCCGACTGCTCCGAGGCGGACGAGGAGGACTCGCAGTCCGGAGGACGGCCCGGAGCCCCCCCGCCACCCCCCGCACAGCCGCAGTGAGCCCACGGCCGCCCCGTCGGGGCCGCCCCCGGCAACGGAGCCTCCTGGCCCCGCTCTCCATCCCGCTCTCCCATCCCTCCCTGCTCGGAGGGGGACGCGGAAAGGGATCTCCCGTCTGCCGAGCGGGAGGGAGGATTCACACAGTGTTATTATTGACTGAGAAGCGGCCACGACTTGAGCCCCCCTCCCCGCCCCGCCCTATCGGAACCGTTTCCTTCTTACCATATATCGGGAAAAGTGTTTATGTCATGAACGTTAAAACTGCTGCAGATCTCAATACTGTCTTTATTTTTGTATATCCTATTTATAAAAAAGGCGAAATGAATTCCTCTACTTATGCATGCTAAATTATTACCCAGCCCCTCCCGCCCTGAGGTGGGGGGGAGGAATATAAATAAAGAGCGTTTTGTACTGTG
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000006438:ENSGALT00000010389:2
Average complexity
IR
Mappability confidence:
NA
Protein Impact
Alternative protein isoforms
No structure available
Features
Disorder rate (Iupred):
C1=0.185 A=NA C2=0.887
Domain overlap (PFAM):
C1:
PF0004624=Homeobox=PU(73.7=77.8),PF088806=QLQ=WD(100=51.9)
A:
NA
C2:
PF0004624=Homeobox=PD(22.8=11.2)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Other assemblies
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
CAGTCCAACCTCCTGGGGAAG
R:
CCTTTCTGCTTCTCTGCCTCC
Band lengths:
245-367
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]