GgaINT0125704 @ galGal3
Intron Retention
Gene
ENSGALG00000001037 | SCAI
Description
NA
Coordinates
chr17:10265036-10266608:+
Coord C1 exon
chr17:10265036-10265132
Coord A exon
chr17:10265133-10266509
Coord C2 exon
chr17:10266510-10266608
Length
1377 bp
Sequences
Splice sites
5' ss Seq
AAGGTATGT
5' ss Score
9.79
3' ss Seq
ATTTGAACTTTTTATATTAGGAG
3' ss Score
5.59
Exon sequences
Seq C1 exon
GCCTGAATTAGTGGTTAAGAAGCTGCGTTACTATGCAAGGTTTATAGTGGTTTGTCTCTTGCTCAACAAAATGGATGTCGTAAAGGACCTTGTAAAG
Seq A exon
GTATGTTAAAATGAGGATAAAGGTGCTGAGAGTGTGAGGTTGCTGGTTTTTTCAGGGCTTTTCTCCTAGTTAATAACTCAGTAACGTGGTCTGTTTAGCCTGAAATATCGCTCATTAGATCTATGATATTTGATACTGCTGCTATGTAGCTTTTCTTTTCTTTTTAATTACTTTTGATTGTGTGTTTGGATACCACAGAAGGAAATAGTAATATGGATGGAGCTGTGGAAAGGTATCAGTATGACATGAACATTTGGTTCAAGGAAAAATTTGTACAAATTGATGTAGTTAGTTGAGAATAAACTGAAAGATGCATGTTATTGATCTGAAAGTGTTGGAATCATTCAATAACTCTGAACACCTCTTCATTCCTGTTGTTGATTTAAGACATTGATGAAATCTCCCCCAGGAAGTCTTCATGACACTTCATTGCTGTGAAAGCCCATGTCTTCAAGTTTGATGTTGAGCTTATTTCTCTTCTCTTCCAAACTGCCATCACTCTGTCCCATGTCTAGGGCACATCCTGAATATATTTTGCACCTCCCAAAGACCCATCAGAATGAAGCCTTGCTAAAGGACATAAATATTACTGTGAAATTAGGGAGGCTGGATCTGCATATGCCACTACTATGGGAGTGAAGTATTGAATAATTGTCAACTCAAGTCTTTGTAGTGACCATTGCTGGTCTTTATAATATATCTGACATCCAACACGATGAATATATTCTGTTAATCAGACATTTAGTGACACTTGATGTTTGAATAATTTGATAGTATTATTTGAACGCCAAGTAAAATATTCCGGTAGCTACAGCTGAGATTGAGAGCTACCCTTTAACTGCAGCAAAGGAACCGTGTGCTTCTCCTGACAGTATATGCTTCCCAAACCCCTCTAACAACCTTGCTGCAAGCAGCTTCTGGTTTTGACAGTTTTGTGTAGGTTGCATTACTGTCTTTTTGTCTAAGCACACTTGAATTAGCAGCAGCAATTAAAAAAAGCCACACAGTTCACTTCCTTAATATATTTAAAGTTGTTTGTGAGATTAAATTTGAATCCTTATTATCCATAGGTTAAGGGAAAAACAAGTGACATAGCTGTATGTGAATGTGGTAGTTACACTTCAGATATTCCAGACACTGGGACCTGCTGAAAAGATACTTTGCATTGCCGAAACCCAGTGCAACATTGGCATTTTTGTCTCCTGAGGGAGCATGTTTTGGCTGGCATGTTAGTCATAAGTGTGCTGCATATGTTCTTGAGTAAAGTGACTTTTTTCCTCATTCTTAAAGGCCAGCACAGCTACCCACATTGTTAAGTTAGTGACCGTTAAGCTTTCAGCTTAGGAAGTAACTGAGTATTTGAACTTTTTATATTAG
Seq C2 exon
GAGCTTTCAGATGAGATTGAAGACTACACTCATCGTTTTAATACTGAAGATCAGGTGGAGTGGAACCTGGTTCTTCAGGAAGTGGCAGCTTTTATTGAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000001037:ENSGALT00000001535:5
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:
PF120703=DUF3550=FE(6.8=100)
A:
NA
C2:
PF120703=DUF3550=FE(6.8=100)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Associated events
Other assemblies
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
GCCTGAATTAGTGGTTAAGAAGCTG
R:
AAAAGCTGCCACTTCCTGAAGA
Band lengths:
190-1567
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]