GgaINT0128990 @ galGal4
Intron Retention
Description
Uncharacterized protein [Source:UniProtKB/TrEMBL;Acc:F1NMG9]
Coordinates
chr18:2213450-2214714:+
Coord C1 exon
chr18:2213450-2213653
Coord A exon
chr18:2213654-2214592
Coord C2 exon
chr18:2214593-2214714
Length
939 bp
Sequences
Splice sites
5' ss Seq
CAGGTGAGC
5' ss Score
9.6
3' ss Seq
GTATTCCTTTTACCATATAGATG
3' ss Score
7.11
Exon sequences
Seq C1 exon
ATCAGACCCAAACAGAGTAATCCACTATGCCGGTGGAGACTTGGTAGCCATTGGCTCTGCAGACCGAAAAGTGAGGATTTTTAACGTGTTGGCAATGAGAGAAGTGCCACCTCTGCTCTCTGGGCATGCTGGGAGCATCAAAGCACTGCTGCTTGATGAGAAGAAAGGGCTCGTTCTTAGCACGAGCTGCGATCTCAGCATCAG
Seq A exon
GTGAGCAGTCCTGGGACTGTGCCCTGGCTCCCACCCCCCTGGAAAACCTAAAAAATTAGAGCTTAAATCCTTCCTCCCCAATCTTCATGAATCCTCCTGACCATCACTTTCACCATAGTAACGAAGAAAGTAAAGCTGATATATCAAACATACCCACCATGAAACTGCTTCTGTTTTCCAGTTTCACCCAATACTGAATGATAAAGTAGGAAGTTGCTTTCATATAACCCGTGTATCACTGTACCTTAAAGCACCAGGGATGTGTGTGGTAGGTGCCAGCAGTGAGGTTCTGTGCCTGCTGAGGTCAGCACCAAGTTTCTCCATGATGCTGCCGGAGGTTTGTTGTGCTGAGCAAATCCTGCAGCCTGCTGCTGGTGTGCAGCTGCTCCTGTCCGGGTCCTGTGTGTTGACACAAAGGGGTGGAGATGAGCAGCTGCTGCTAAATCTTATTTACCACTGAATCTCACCTACTGAAAGGGTGTCAAACGAGGGGTGAAAAGCTCGACAGCTCTGGCATGGTACATGCACATTTAACAATAAGAGAAGAGTGATTCAGGCTCTCCTGCCTGCCCTTCCCCTCCCCAGGAGTGTTGTTTGTTGAGTTCTCAAGACAAAGTCAACAGAAATCATCTTGGTATCCACCAGCAAAGAAATAACCTTATCTGTAAAGCTCTCCATCTGAAGGTCAATTTGATGTAGCCATGCCAGAGCTGAAATCCAACTATACATTTCTGGGCAGCTCGGTGGTGGAAGAGCAGACAAAGTGTAAAAATTTACCATTAAGCCTGCTGTGATTGTTCTGAATCCCTCATCAATTCACTGGGATGTCTCCTGATCTTAATGTAGCATGGATTTGAGAAGAGCTGGGCCAGTTAAGTAGGAAGTAATTAATCATCCACAAATTATATAATTAATCACTGTATTCCTTTTACCATATAG
Seq C2 exon
ATGCTGGAATATATACAGTGGTGCTTGCATGAAAATCTTTACTGGTCACTGTGGGGCCATCACCTGCTTGGATTTACATGGCAAGAAGTTTGTGTCGGGAGGCACAGATGGGATGGTGAAAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000001323:ENSGALT00000002016:6
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:
NO
A:
NA
C2:
PF0040027=WD40=PU(91.9=81.0)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Other assemblies
Conservation
Human
(hg38)
No conservation detected
Rat
(rn6)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
ATCAGACCCAAACAGAGTAATCCAC
R:
CTTTCACCATCCCATCTGTGCC
Band lengths:
326-1265
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]