GgaINT0125479 @ galGal3
Intron Retention
Gene
ENSGALG00000001253 | RC3H2
Description
NA
Coordinates
chr17:9494205-9494969:-
Coord C1 exon
chr17:9494835-9494969
Coord A exon
chr17:9494313-9494834
Coord C2 exon
chr17:9494205-9494312
Length
522 bp
Sequences
Splice sites
5' ss Seq
GAGGTAAAG
5' ss Score
8.27
3' ss Seq
AAAGTATTTCATTCTTTCAGACT
3' ss Score
6.84
Exon sequences
Seq C1 exon
GCCAAAAGTAACTCATTATTACTTCAGAGAGAAGCAAATGCACTAGCCATGCAACAGAAGTGGAATTCTCTAGATGAAGGCAGTCGACTTACCTTAAATCTTTTAAGCAAGGATATTGATTTGAGGAATGGTGAG
Seq A exon
GTAAAGCAAGGGGTGATTGGGATGAAACAAATCTTTGAGATTTATATGCACACAGACGCATTTTTTAATTCTGATGCTCCAAAATACTTGTCGAACATTTGGTGCAAGTTAAGTTGCTGTTGTTGTTGTACCCGGTTATTTCTGTAGACGAAGTAGCTGGACTGGCTGTTCTGCTACTCCAAGCATACATTTAGAAAGTGGAAATGTGACCATCTATTTTAGTGTGAACCTTATTCTTTGCTCTACTTGTACGCGTTAAAAATCTAAATCTTAATGAACTCTACAGAAATTTCCATTCTGGTATTCATTTTCTCTTTCAGTACTTTGCTAATAGATTTTGCTGTGTGTTCTGTTTTGTCTATACCTGAAGTTCTATTTGTTTTGTATCGTTTAGCTCTCCCTGTGTCATACAAATGTTGTGTCCTAGAAACACACCTTCTGTTTTCATTTTAATATGTGACTGTTTTGGGAAGCAGGTGAAAAGCCAACTTGATATTTACAGAAAGTATTTCATTCTTTCAG
Seq C2 exon
ACTGATTATAGTGAAGACTGTGCCGATACAAAGCCAGATCGAGACATTGAATTGGAGCTATCTGCTCTTGATACAGATGAACCTGATGGGCAGGGTGAACAAATAGAA
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000001253:ENSGALT00000001902:17
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.111 A=NA C2=0.972
Domain overlap (PFAM):
C1:
NO
A:
NA
C2:
NO
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Other assemblies
Conservation
Zebrafish
(danRer10)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
CTTCAGAGAGAAGCAAATGCACT
R:
TTCTATTTGTTCACCCTGCCCA
Band lengths:
222-744
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]