GgaINT0105033 @ galGal3
Intron Retention
Description
NA
Coordinates
chr1:79477605-79478559:-
Coord C1 exon
chr1:79478331-79478559
Coord A exon
chr1:79477732-79478330
Coord C2 exon
chr1:79477605-79477731
Length
599 bp
Sequences
Splice sites
5' ss Seq
CAGGTACAT
5' ss Score
7.79
3' ss Seq
TCTTTCTCTCTGCATCTCAGATC
3' ss Score
9.48
Exon sequences
Seq C1 exon
TTCCACTGGAGAGGCTAATATCTTCTACACCGTCCCTGATACCATCACAGAATGGAAAGCCAGTGCTTTCTGTTTGCAGGATGATGCTGGGTTTGGCATCTCCTCACCTGTTTCACTGACAGCATTCCAACCATTCTTTGTGGATCTTGCCTTGCCATACTCCGTCATTCGAGGAGAAAAAATTAATTTAATAGCCAACATTTTCAATTACCTTGACAAGTGCATTCAG
Seq A exon
GTACATCAAGTTCCCTTTCAATTTCTATATGGTTTTCCTCTTCCCCAGAGTTCCCAGCATTGTTTTTCTGCCCTGCATATTGCATTAAAAATGCAGAAACAAGTATTTAACTTATGCTATAGCCTGACACATTACGCTCTCATCCTCTCTGACAGGATCCATTCCTGTGTCATTAGGAAAGTGTGGCCAGTGACCACTATAACTGGTACAAAGAAGATAAGAACCTGCTCCTTATCCCTACATGGTTCATTTATTTTTGCTCCTGAGAGAGAAATTTGAACAGAGTATATGGGTAGCATGCTCTCCCAAATAATATGTACTGAGTATGTAGCATATAGCAGAAAATCATAAGATGTGACTGATAAAATGAGCACAGACATTTTGGCATATGTCTGTCAAATGCAGCCAGTAACAGCAGGCACAAACTGGATAGGTTTGCTATTTCCTCAAATGAATGTCCCTTTCTTATTTCCAGGTACCATCTTACAGAATCAGATGACATAGTTTCTCCAGCAAGTGACTTTTTCCTGTGCCCTGAAGCCTAACTTCAGGGGCAGCCTACTTCATCTGTAATTTTTCTCTTTCTCTCTGCATCTCAG
Seq C2 exon
ATCAGTGCCATACTGGCAGAGTCAAGTGACTACAAGGCAGAAGTCCTTTCACCAGAAGGAAACACAGCAAGAGTGTGTGCCAATGAAAGAAAAACCTATATTTGGGCTGTTAGCCCCCTCAGTCTTG
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000011930:ENSGALT00000019460:18
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:
PF0020717=A2M=FE(83.5=100)
A:
NA
C2:
PF0020717=A2M=PD(4.4=9.3)
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:
GGCTAATATCTTCTACACCGTCCC
R:
AAGACTGAGGGGGCTAACAGC
Band lengths:
343-942
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]