GgaINT0094721 @ galGal3
Intron Retention
Gene
ENSGALG00000017398 | F1NHU4_CHICK
Description
NA
Coordinates
chr2:109232133-109232918:+
Coord C1 exon
chr2:109232133-109232296
Coord A exon
chr2:109232297-109232783
Coord C2 exon
chr2:109232784-109232918
Length
487 bp
Sequences
Splice sites
5' ss Seq
GAGGTATCA
5' ss Score
6.35
3' ss Seq
GATTTCTTTTTCTGTGGCAGCAA
3' ss Score
7.06
Exon sequences
Seq C1 exon
ACACACTGGTGATGAAAATAATTGCATCAGATGCCGATGAACCAAATCACTTGAACTCTAAAATTGCCTTCAAGATAGAGAGTCAGGAGCCTTCAGGCCAGCCAATGTTTATTATGAATAAATATACTGGAGAACTCCATCTAGCAAATTATCTTGACAGAGAG
Seq A exon
GTATCATTTCTGTTTCCCAAGTCAAATAACACAATGCTGTTGTGTATCTTTAACAGTGATATGATGCCAGGGTGCATGGGAGGGTAGGTAAGCGAGGTGGGAACAGCATGGGAGGAGGGGAGAGAGAGAAAAAGTGTGCCTTTTGCAAAAAAGAAAGGAAGGAAGGAAGGAAGGAAGGAAGGAAGGAAGGAAGGAAGGAAGGAAGGAAGGAAGGAAGGAAGGAAGAGAGAGAGAGAGAGAGAGAGAGAGAGAGAGAAAGAAAGAAAGAAAGAAAGAAAGAAAGAAAGAAAGAAAGAAAGAAAGAAAGAAAGAAAGAGAAAGAAAAGAAAGCAAAGAAAAATTTAAATGGGAAAATATATATTTTTATATGTGCTACAATGAAACACCAGAGAGAAACTCCTGTATAAAGAAACAGTGGCAAGACATTAGTATTTATATTTTATAAGATGTAGAGATTCTTGTAACAGGATTTCTTTTTCTGTGGCAG
Seq C2 exon
CAACACAGTAGTTACACTTTGGTTGTGAAGGCATCAGACCGGGATGGAGCAGCAGATGGAATTTCATCCCTTTGTAACTGTCATGTGAAAGTTATTGATGTCAATGACAACTTCCCAACTCTTGCTCAAAGCTCC
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000017398:ENSGALT00000036805:8
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.073 A=NA C2=0.000
Domain overlap (PFAM):
C1:
PF0002812=Cadherin=FE(55.1=100)
A:
NA
C2:
PF0002812=Cadherin=PD(31.6=68.9)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Associated events
Other assemblies
Conservation
Rat
(rn6)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
ACACTGGTGATGAAAATAATTGCA
R:
GCTTTGAGCAAGAGTTGGGAA
Band lengths:
294-781
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]