GgaINT0124244 @ galGal3
Intron Retention
Gene
ENSGALG00000004142 | F1P4F0_CHICK
Description
NA
Coordinates
chr17:6270377-6271133:+
Coord C1 exon
chr17:6270377-6270446
Coord A exon
chr17:6270447-6271019
Coord C2 exon
chr17:6271020-6271133
Length
573 bp
Sequences
Splice sites
5' ss Seq
CTGGTAGGC
5' ss Score
6.99
3' ss Seq
TTCTTCTTGTTCTCTTGTAGCCC
3' ss Score
10.67
Exon sequences
Seq C1 exon
GCCTTACTGGAATGAAAAATCTTGGGAACTCCTGCTACATGAATGCAGCACTTCAGGCTCTCTCTAACTG
Seq A exon
GTAGGCACTAGGGCCTTTAGTAGAGTCTTTTACTAGACATCATTACATATCAGCAGTGGCACCTCTGATCTGGCACCTTCCTTAGTTGTGCAAGGATAAACCAGCCAGACTAGCTACAGAAAAAGGAATATGAAAAGTTAGTGTTTAGGAGAACAGAAGTTCTGCAGTAGGAAAATGGGTGAATAGCCAACTTGTGGCTGTAAGACTTGTCTTTAGATGAATGCTGGAAGTAAAACTCCTTTCCACCATGACAGAAACGTATCTGCCACACAACAAAATGTGCAATCTTTCTGCTTTCCACGGTGGTATCATTCCAACCACTCACACTGTAGGATTTGCCATTCTGCTGACAACTAGTTTCAGGATCTCTGTGCTGGGAAGAGATTCAGATCAGCCTTCTTTGTTCGTTTCTAGGCAGAAGTCAAGTTTGCATCTAGAATCACTTCTTCCCTTGATTTAAAAGCACTATCTTAAGCATGTTTTCAGAAAGGGATGTGTTTAAGTTTTGATAAATCCTTAAATAGAGGCAGAGAAGAAATTTCTATGCTCTGAATTCTTCTTGTTCTCTTGTAG
Seq C2 exon
CCCACCTCTCACACAGTTTTTTCTGGAATGTGGTGGTCTGGTCCGTACAGATAAGAAACCAGCACTATGCAAAAGTTACCAGAAGCTGGTGTCTGAGGTTTGGCATAAGAAACG
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000004142:ENSGALT00000006585:6
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.042 A=NA C2=0.000
Domain overlap (PFAM):
C1:
PF0044324=UCH=PU(32.4=91.7)
A:
NA
C2:
PF0044324=UCH=FE(55.9=100)
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:
GCCTTACTGGAATGAAAAATCTTGGG
R:
CGTTTCTTATGCCAAACCTCAGAC
Band lengths:
184-757
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]