GgaINT0143171 @ galGal3
Intron Retention
Gene
ENSGALG00000000252 | Q8AV15_CHICK
Description
NA
Coordinates
chr27:1538090-1539062:-
Coord C1 exon
chr27:1538958-1539062
Coord A exon
chr27:1538361-1538957
Coord C2 exon
chr27:1538090-1538360
Length
597 bp
Sequences
Splice sites
5' ss Seq
TCGGTACGT
5' ss Score
10.06
3' ss Seq
CACCATCACCCCTATGACAGAAC
3' ss Score
4.62
Exon sequences
Seq C1 exon
TTTGGAGGCAAAGACATCTTCATGACAGAAGAGCAGAAGAAATACTATAATGCCATGAAGAAGCTCGGCTCCAAGAAACCCCAGAAGCCCATCCCCAGGCCCTCG
Seq A exon
GTACGTTGGGGTAATCCCCATGGCATGCAGTGAGCCACCAACTGTCCCAGAGCGAACAGGGAGGGTTTGGGGATGAGCTCTTCCACTACAAAGAGCCAATTCTTGGCTCCTTGGAAAGGACCTTGCTAAGAGTTGGGGTATCAGAAAAGGTTCACATCTGGCAACCTTGTTTGGGTCTGTTCTTCAGCCCTGAACCTGCAGAACAAGGGGAGATCGCTTTTGTAGGGGCTGAGGATTTCCTCCCATCTCCCCTCTCCAAGGAGTCAGACTGAGGGAAACCTCAGCTTCCATTGCTCCTAGAAAGGAAACTGGTCCACCCAATACATACACAGTTGTGATTTGGGCTTTCCCAGCTCAAGTGAGGTATTTTCCCATGGATTCATTGCTGTCCTGATGGATATGCTTTGGAAACAACTATCTCCTGTGCCCACACCTCCTGGCCATAGTGGTTCCAGGTGCTGGGTATCCTCCTCCCACATCTTCCTGCACGCTCCTAAATCTGGTTCCTTCTTCTCTTTCTGTTGTGTCTTTGTTTTGTTTGTGTGTGTCCCGTGTTCCCACCTCACGTCTGGCTCTCCACCATCACCCCTATGACAG
Seq C2 exon
AACAAGTTTCAAGGGATGGTGTTTGACTTTGTTACCAAGCAAGTGTTTGACATAACCATCATGATCCTGATTTGTCTTAACATGGTGACCATGATGGTCGAAACAGACGATCAAAGCGAGACCAAAACAGACATCCTCTACAAAATCAACCTGATCTTCATCGTCATCTTCACTGGAGAGTGTGTGCTAAAGATGTTTGCCTTGCGCTACTACTACTTCACCATTGGCTGGAACATCTTTGACTTTGTGGTGGTCATCCTCTCCATCGCAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000000252:ENSGALT00000040680:28
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.043 A=NA C2=0.000
Domain overlap (PFAM):
C1:
PF116463=DUF3258=PD(23.5=57.6)
A:
NA
C2:
PF0052026=Ion_trans=PU(20.4=47.3)
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:
TCTTCATGACAGAAGAGCAGAAGA
R:
TGGAGAGGATGACCACCACAA
Band lengths:
354-951
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]