GgaINT0117948 @ galGal3
Intron Retention
Gene
ENSGALG00000011894 | F1NJG4_CHICK
Description
NA
Coordinates
chr1:51293629-51294646:+
Coord C1 exon
chr1:51293629-51293800
Coord A exon
chr1:51293801-51294493
Coord C2 exon
chr1:51294494-51294646
Length
693 bp
Sequences
Splice sites
5' ss Seq
AAGGCAAGT
5' ss Score
3.24
3' ss Seq
TTGATCACTCTTATTTCCAGGGC
3' ss Score
8.07
Exon sequences
Seq C1 exon
TTTCGCAAGAAGTTTGGAAACATTTTCAGTCTCCAGAACTGCTGGACCAATGTGGTAGTGCTGAATGGGTACAAAACTGTGAAGGAAGCCCTGGTCAACAAATCAGAGGACTTTGCTGACCGGCCATACATGCCAGTATATGAACATCTGGGCTATGGACATAAATCTGAAG
Seq A exon
GCAAGTCCTTCGCAAAGGTACATTTCCTGCAGACACTAGCTCAAGGAGGACTGGGTAGATAATGAGTAGACGGAAGATTTTCGTGATGTAAAGCCAGCTTCTCATGTCCCTGTAGCCAATATCCTTGTACATCTGCCACTCTTCTGTGGTCACAGAATCAGGTGATCTACCAGCTCCAGTAAGTAGCTGTAGTACAGCTCCAGGCACTAGCACACACCTCTTCAGCAGTGTGAGAACACAATCAGTGGTACAACTTGCTTGCCAGGGTGAGAGCTGGTAGTTCTCTCTGCCCAGTGCCCATTGCCACCCAATGAGCATGTCCTTGTCATTACAAAAAGATGGCAACTTTCTTCCAAGAAAACAAAGCATCCCTCCCCATCAGATCCTCTGCACAAGCTGCTGCCCAGTTTGTACAAGCTCAGGACACAGTGCTGAATAATCTGGAGGAATGTTTCCTTCCTATGCTCTCCTTCAGTCCCCCCTTTTCCACCTTTGCTAGGTGCTTACCTGCATTAGAAGGCGCAGTACTAAGTTCTTAGAATGGCTGTTAGGAACAAGCCATACACAGTCTTACCCTTTTCTGTCTCTTTCCATGAATGTGAACCTCCAAACTCACATTAATTCTTTTCTAGCAAACCCTACTTGGTGTACACCTCAGAGCTCCTGATGTTTCTTGATCACTCTTATTTCCAG
Seq C2 exon
GGCTTGTTTTGGCAAGATATGGACATCTCTGGAAAGAGCTAAGGAAATTCACGCTCACTACCCTGAGGAATTTTGGGATGGGAAAGAAGTCCTTGGAAGAGCGAGTGACTGAGGAAGCAGGATTTTTGTGCTCTGCAATCAGTTCTGAAGGAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000011894:ENSGALT00000019412:2
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=0.000
Domain overlap (PFAM):
C1:
PF0006717=p450=FE(12.4=100)
A:
NA
C2:
PF0006717=p450=FE(11.1=100)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Other assemblies
Conservation
Mouse
(mm10)
No conservation detected
Zebrafish
(danRer10)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
CGCAAGAAGTTTGGAAACATTTTCA
R:
CCTTCAGAACTGATTGCAGAGCA
Band lengths:
320-1013
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]