GgaINT0060218 @ galGal4
Intron Retention
Gene
ENSGALG00000009282 | ELMSAN1
Description
ELM2 and Myb/SANT-like domain containing 1 [Source:HGNC Symbol;Acc:HGNC:19853]
Coordinates
chr5:25432350-25433016:+
Coord C1 exon
chr5:25432350-25432523
Coord A exon
chr5:25432524-25432816
Coord C2 exon
chr5:25432817-25433016
Length
293 bp
Sequences
Splice sites
5' ss Seq
ATAGTAAGT
5' ss Score
8.65
3' ss Seq
ACGTTTTTCTTTCTCCAAAGGCC
3' ss Score
10.59
Exon sequences
Seq C1 exon
AGTTCCCATAGGTTTGCACGTGTGCTTCCTCTCAGAAGGGACTTTTTCAGTGAAGAACAGGGGCACTTGGAAGAGGAAGAAGAGGAGGCAGAAGAGGCAGAGGAAGGGTTGGATAACAGAAAGAAGAGCACACTCCTTTTCAAAGATGAACAGACACTACAAGATGATTTAATA
Seq A exon
GTAAGTGCTGCATTATGCATGTTGTGTTCTTTATACTATCTTCACTCTGCAAGTAGTTTAGAAAATACCAGGTGAACAGTTAAAGATGTAAAAGTTTTTGCCTTCTTCCAGAGCAAGGGCTGGGCTGAAGTAGCTTAGAGTGTTCCTGGTAACAAGACTATGTGCTGTTCTGGAAGAACAGGGATGAGTAAGGCAAGGAAACCCAACTTAATTATTTGTAGTTGATGTACACGTAGGATCACAGTGAGAAGTGGATTTTGGTTTGCTTGCTTTACGTTTTTCTTTCTCCAAAG
Seq C2 exon
GCCAGTGATGCCAATATAAGGAGTCGAGAGGCAACTGTTACCGGCAGAATTGGAAGAAGGCCGAGGGAGACGACCATGAAGCCTCGAAAGCTTATTCCTGCTCCAGTGCAGAGGAGGCGGCGAAAACAGAAGATGAAATCAGATGTTACCAGTAAAATCCAGAACACAGAAAACACATTTCCATGTAAAAAGTGTGGCAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000009282:ENSGALT00000015102:10
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.276 A=NA C2=0.776
Domain overlap (PFAM):
C1:
NO
A:
NA
C2:
PF138241=zf-Mss51=PU(40.0=32.8)
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:
TCCCATAGGTTTGCACGTGTG
R:
ATCTTCTGTTTTCGCCGCCTC
Band lengths:
305-598
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]