GgaINT0125429 @ galGal3
Intron Retention
Gene
ENSGALG00000003175 | C9orf96
Description
NA
Coordinates
chr17:7572832-7574084:+
Coord C1 exon
chr17:7572832-7572911
Coord A exon
chr17:7572912-7573783
Coord C2 exon
chr17:7573784-7574084
Length
872 bp
Sequences
Splice sites
5' ss Seq
ATGGTATGT
5' ss Score
8.35
3' ss Seq
GTTCTCATATTTCTCTCCAGGAG
3' ss Score
10.02
Exon sequences
Seq C1 exon
AGGACGTTATGCTGGATATGTTGTCACAGCAAATGGAAGAGTTGCTGTCTGAAATAAAAAGCCGGTTTCCATCTAGCATG
Seq A exon
GTATGTAGAAGTCACTGACAATAAAGGGTGCTTGCTTAATATTACAGACTTTGTCATTCTCAAATGTTGGCATAACATACTTCAGAACTTTACAGAAGAATTGTGTGTATATGGTGTGAACAGTGAGGTTGTACAAATACACTTCTAATTGTTTGCCTGAAGGGTTAAGTTGAATTCCAACACAGTCGTACTGGGGAAAAACTGTTGAAACACCAGAAACAGTGAAGTTATTCAACCTATTTAATGTGTTATTCTAAAATTTCCTTTACAAAGGCTTGCTGTCAGGTAGCCATCAATTAGACAATTAGGTGTCTTTTTTCCAGCAAGCCAATATAACTGGCTAGTCTTATAACACTGTTTTTTTTCAGTTATGCATTTAGTGTGCTTACATAAATTGTCTCAGGCAGTTGCAAACAAACTTGTTCTCCACTGTCTCCTGCAGGCACTGCCTGAAGCATATTAATGAAAACTGAAGCTATAGTTAGTGCATTAAAAAAGCAAACAGAAATCAGAAGAAAGCAGCTGCCTCTGTTGTAAATGCAATTTGTTGTTCCCTGTGTTCCACAATGACAGACAAGGCAGACAGACAAGACCGGAATCTCTTAATCTAGCAGTACGCTGTGTGGCATGCAACTGCTAGTTCTCTGAAACCTGTACCTTGCTACCTTCCACTATTTAAATTATTAAAAGCATGGCATTAGTTGTAATTAACAGAATGAATACTTTGGATTTTCCAGAATCAAACCCCATGTGTTTAAAACATCATTTGTTTTAAAGGCCTATTTTAAGCACAGTTCTTTATTAACAAAGTATAAAAATAATTGAAACAACAAGGTAGTCTTATATTTATCAGTTCTCATATTTCTCTCCAG
Seq C2 exon
GAGATTATGACCCTTGCGGATACAGCACTTTTGAAACTGCAGGAGTAAAGTAAAAGCTTTCTGTATAAGAACAAGACCTGTAGACTTCTGGCTCAGATATAAAAGCCTGGATCATCCTGAAGTATTTTACAAGATATTTCTCACCAGGAAGATTAATATTGGACCATTAACAATACTTAAATAATTCTATGTTCTCTTTAGTTACCACAGCAGTGAGACTAATAGCAATACTTAAGAGCTTGCCTTACCTTGTAGACTTCAAAAATATCCAAAATAAAGGTTTTAGTCTTGAGAGTTTCAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000003175:ENSGALT00000005036:19
Average complexity
IR
Mappability confidence:
NA
Protein Impact
Alternative protein isoforms
No structure available
Features
Disorder rate (Iupred):
C1=0.000 A=NA C2=0.000
Domain overlap (PFAM):
C1:
NO
A:
NA
C2:
NO
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Conservation
Human
(hg38)
No conservation detected
Human
(hg19)
No conservation detected
Mouse
(mm10)
No conservation detected
Mouse
(mm9)
No conservation detected
Rat
(rn6)
No conservation detected
Cow
(bosTau6)
No conservation detected
Zebrafish
(danRer10)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
AGGACGTTATGCTGGATATGTTGT
R:
TTGAAGTCTACAAGGTAAGGCAAGC
Band lengths:
342-1214
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]