GgaINT1012237 @ galGal4
Intron Retention
Gene
ENSGALG00000009282 | ELMSAN1
Description
ELM2 and Myb/SANT-like domain containing 1 [Source:HGNC Symbol;Acc:HGNC:19853]
Coordinates
chr5:25432817-25435302:+
Coord C1 exon
chr5:25432817-25433016
Coord A exon
chr5:25433017-25434006
Coord C2 exon
chr5:25434007-25435302
Length
990 bp
Sequences
Splice sites
5' ss Seq
CAGGTAAGA
5' ss Score
10.77
3' ss Seq
ATGCACCTATATTTCCTCAGGGT
3' ss Score
7.91
Exon sequences
Seq C1 exon
GCCAGTGATGCCAATATAAGGAGTCGAGAGGCAACTGTTACCGGCAGAATTGGAAGAAGGCCGAGGGAGACGACCATGAAGCCTCGAAAGCTTATTCCTGCTCCAGTGCAGAGGAGGCGGCGAAAACAGAAGATGAAATCAGATGTTACCAGTAAAATCCAGAACACAGAAAACACATTTCCATGTAAAAAGTGTGGCAG
Seq A exon
GTAAGAGCAACTTAGCTTCCAGCAGTAGTCATGGAATTACAGTAGGGGAGGCCGGAGAGACTGGCAACAATTTTTATGAGGTATTACCCTACTTAATCTTGCAGATTAGGGGTTTTTACAGTGTTTGTTTGTTTGTTTTTAACAACTTACAGCTTTGAGATGTCTTTCGTATCAGAGGTATATTGATATTAAGATACTTCGACTTGGCTAATTACCTTCTGATCGTTCTTCAAATGGCATGAGACACTGCCTGCATTTCAATGGTGTGTAGTATTTGGATGGCAAGAAAATGAGATCTCCATCTAGTTAAATCACAAAGACTATTAACAAATTGTTGCTATTTCTGGCACTTATCTGACCCTGCAAAGATATATTGTCCCTGTGTCCTCAGAGCGCATGTTGTACTGGAAAGGTTAGAGCTGTTAGAAGGCAGATTTGACCCTGAGAGAAGGAGCAGGCAAGGATTCATAATGCTCTCTAAACCTGTCTTGTGACATTTGACGCCAATTCAAAACAGCTAATGGTGAGAGATAGAGGGATAGATCACAGTAGTGCAGAATTGGAAAGAAAATGCTCAAATGTTTCCAGCTGTGTGGATAAGTGTCTGAAATGGCAGCTGACTGTTCACTTCTGTGTTTATTGTATTTTTGTGGTGTAGGGGGAATGGCTAAAAAGTGGGGCCCTGTTGTGTTAAGCAGCATGTGTGTGTTTCAGATGCCAGTGTTGCCCTTCTGAATTTAGAAATATATGAAGAAACAAAGCAAGTAATTCAAGGGTGCTCAGGATTTCCTGCTAATACTTCAACTAGTGTACTGGCACGTGCTGAGGCAGAAGTGGTGTTTGTTGTAGATGTTTTGTTGCAGTGCCAACATGGGTTCCTGTGCTGAAGCTCGCAAACTTGAGGCTGTAGCTATGGAAAGCTCCTTCAGTGAATTAATGGAGGAGAAAGCTGTAAATGAGATCAATGCTAATGCACCTATATTTCCTCAG
Seq C2 exon
GGTGTTCTACAAGGTGAAGAGCCGCAGTGCTCACATGAAGAGCCATGCAGAGCAGGAGAAGAAGGCAGCCGCACTGAAGCAGCAAGAGAGAGAGGCAGCAGCAGCAGCAGAGGCGGCAGCAGCGGCAGCCCACAGCCAGGCCCAGCAGGAAGAGAGCAGTGAGAGTGGGAGCAACAGCAGTGGAAGCAGCAGTGGGAGCTCGGATGAGGATGGAGAAATATAGCAGCAGACTAGAAATGGAGGGAGTAGCAAGGCTGGACCTATCACCCTCTCAGTGGTTTCACATTTTTTGCTTGCACTTTTCTGGCCTGAACCATCAGGTCTCAGTTTCAGTGCTGCGGCCTCCTCGTGCCACATGTTCCACTTCACCTTGCCAGTACTGACTGAGCCAGAGTGGCGGACAAGAAGATTTGTTTCAGCTTGGATTTAAAAACAAAAAACAAAAACAAATAAGATTTCTATTCTATTTATAGTCATACCTGAGGTACACAATTGAACAACGTCACCTGCAGTGGAAGTAAGTTCTCTTGGGTCAGTAAGACCTCTCTTCTTGTGCTTGTCAGGAATCATGATAACAGGATTCTTGGATATAAAGGTTTCCAGAACAGAGTTAGAAAATGGTGCTCTGCTCTGAGGTGACTGTATCCAGTTACTGTGATACTGGTGATTTCTAGATGTTTTCTTTCTTAGCAAGTTGTTCTTCCTGTTACACTTTTTCTGCCTTTCTAAGCATTTATTCTGGCTGCCAGCAAGCTTTGTGGAAAGATGGTGTGTGGTTTTGGCCTTTGTTACACAAAACTGAAAAGTGGGATGAGCAAGCTTCCTCATTCTGAGAGGAAGTTTTATTTTTCAAAGAACCCTGAGGTGGTTTTCTTTCATGCTATTAAGAACACAGCAATGGGTGTAAGGTATCCTGAGGGACTGAAGTAGTCATGGGCCTTGTGGGTTGTCTCCTAGTGGAAAACAAAATAGTTAGCCTTTGATTAACTTCTTGGAAAGTAGTCTGGGTTTCACAAGTGCAATTTGAAATGAAAGCTGTTGGTTTTGACTTTGGTTAAAGGGGAGCAAGTTTGTATTGTGAAAGTGAGCATGGACCTTGTCTGCATGTTGGACTGTGTGCACCCCAGAGATGGGAGGAATGAACTTTCATCTCTATCAAGCTCCTTAAATCCCCCTGTGAATGGCTCTTACCTCTCAACACATCCACTTATTTCCTGTGGCAGCCCTTATTTATCTTCTGAAACTTTTGCCACTGAGAGCTTATATTCATGGGGCCCTTGTTTTCCAGATGCTTCC
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000009282:ENSGALT00000015102:11
Average complexity
IR
Mappability confidence:
NA
Protein Impact
Alternative protein isoforms
No structure available
Features
Disorder rate (Iupred):
C1=0.776 A=NA C2=0.919
Domain overlap (PFAM):
C1:
PF138241=zf-Mss51=PU(40.0=32.8)
A:
NA
C2:
PF138241=zf-Mss51=PD(58.2=42.7)
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
Zebrafish
(danRer10)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
GAGGCGGCGAAAACAGAAGAT
R:
AGCCTTGCTACTCCCTCCATT
Band lengths:
343-1333
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]