GgaINT0036004 @ galGal3
Intron Retention
Gene
ENSGALG00000011394 | F1NT96_CHICK
Description
NA
Coordinates
chr8:27459503-27460370:-
Coord C1 exon
chr8:27460210-27460370
Coord A exon
chr8:27459689-27460209
Coord C2 exon
chr8:27459503-27459688
Length
521 bp
Sequences
Splice sites
5' ss Seq
CAGGTACAG
5' ss Score
8.68
3' ss Seq
TTCATTTTTTCTGTCCAAAGCTG
3' ss Score
8.13
Exon sequences
Seq C1 exon
GAAATCCTTTCAACCCTCACCTTAAAATCAACAATGCTGTTTCAAACATCATCTGCTCCGTCACCTTTGGCAACCGGTTTGAATACCATGATGAGAACTTCCAAACCTTGCTGCGGCTGATGGATGAGACTGTTACCCTCCATGAGAAAATAATGAGCCAG
Seq A exon
GTACAGCCCTCCTCCTGATGAACAAACCAAGCAACCTCATCTGATCCTCATACACCTTTATGTGTAGACACTTCAGCACTGACACAGCACTCCTTTGAACACTCATTGATAGTTTATGTCCTTTTTATACTGTAGACCCCAAAATCTCTCTAGGAGAGGTTTGGGGAAGGAGCAACACTGAAAAAATCAAGGATGTTTTTGCCATTCCCCATATAGAGTACATCAGTCAGTAATTTCTTTCAGCCATATTTTCAAGCTGAGCAATGCTCACATTGCTCTCTTTGCCCCCACATCACTGCTCCTAACCACTGATTGCCAAGCTCCCTGTTGTGACTGAGAAATGCACTAGTCCCTCTATTGTGAAATGGAGATACCAATCCTATGTCATGCTCCTTTAGAGACAGATAATTGCATGTACTCCAGCACTGTAGGACAGTGGCTTTGCAGGTTTTTCAAGTTTTGAAAACAGGAGGGGTTTTCAGTCCTTTACTCAATTTGCTCTTCATTTTTTCTGTCCAAAG
Seq C2 exon
CTGTACAATGCTTTCCCCTCCATAGTGAAGTACCTCCCTGGATCCCACCAAACCATATTTAAAAACTGGAGGCTCATGAAAGATTTTGTGAACGAGAAGATCAGCAAACATAAGGAAGATCTGAACCCCTCAGAGAGCCGGGACTTCATCGACAGCTACCTGCAGGAGATGGCCAAGGTCAGCAAT
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000011394:ENSGALT00000017746:4
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=0.065
Domain overlap (PFAM):
C1:
PF0006717=p450=FE(11.6=100)
A:
NA
C2:
PF0006717=p450=FE(13.4=100)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Other assemblies
Conservation
Zebrafish
(danRer10)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
GAAATCCTTTCAACCCTCACCT
R:
ATTGCTGACCTTGGCCATCTC
Band lengths:
347-868
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]