GgaINT1000226 @ galGal4
Intron Retention
Description
Uncharacterized protein [Source:UniProtKB/TrEMBL;Acc:F1NUF4]
Coordinates
chr18:2148657-2150774:+
Coord C1 exon
chr18:2148657-2148768
Coord A exon
chr18:2148769-2149741
Coord C2 exon
chr18:2149742-2150774
Length
973 bp
Sequences
Splice sites
5' ss Seq
AAGGTGGGT
5' ss Score
8.23
3' ss Seq
TAAAGCTCTTTGTCCCATAGTGG
3' ss Score
5.97
Exon sequences
Seq C1 exon
ATGCTGCAGGTGGGGCTCAGCCTGCCCCGTGCCCCCGAAGGGGAGGCCAGAGCCTTCCCTGCAGAGCTGGATGGGGATGGTGGAGACAGCGATGGCGCCAGCAGAGCGCAAG
Seq A exon
GTGGGTGAGCACCATAGTGGGGATGGGGCCTGGGCTGGGGACATATCCTGGGCCAGGTGCCTGCAGCCAGGTGGGCTCAGTGTGGTGGTACCTATAGGTTTGCTCCTACTGCAAGCACGGGGGAAATTTGGGAATCATGGTAGTATCCAGAGGTACAAATAACCCCAATCCATCCCCACTGTTTTAGCCTGTTTTTATGGCCGTAAGCGTGGCTGTGCTGAATGTTCCTGTGTGACCACCTGTGTTTTCAGCCTGGTGTTCTTTCTGAGTCCCAGCCTGGCTGCTCAGAGCAGGGTGAGATGCTTTGCAGATCTGAGCTGGCCGTGCTGGCTGGGCTGAGCCTGAGCAGGAGCCGAACTGAGCCAGCACGGTGCAAGCAGACCCGGACCGGGCCACCTGCATGTGGCACTGTCACTGTGGCCATGCTGTCCCTGGGTGTCCCCCTGGGTCCAGAGCAGAGAGGTGCACAAATCCACAGGTGGGAGCCGAATCTCCCCACCCTCTCCTGGCTGAGTGAGCACGCCTAACATGATACACCAGAGGATTAAGGTGCGTGCTAATTGGCTGTATCCGGCTGGCTATTAGCTGCCTGGCACAACTCACTCCAATGGAAACAAGCAGGATGCAGGGCTGAGCCCGGCGGTGACCCCAAGGAAAATACCTCTGCTTCTCCCTAGGAGGAGCTCAAACCCTGCTCACAGAGCTGCTCTGCATGAAGCCATTCCCACTGCCACAAGACGGTGCTGGGCCGCCCGGCTGGGTTCAGGGGGCACACGGGGACATGGGGAACATGGACCTGCTGGGGGCTGCCCCTGCTCTCGCTGAGCCCTCAAGGGATGGGGGCCATTCTGCCCTTTCCCTTAGCAGGGAGGGGGTATTGCCATAGGAGGAGGTGCTCAGGACTTCACTGCGCTGTGGCAGGGTGGCACTGTTAGTGGGGTGCCGTGTCGGATTAAAGCTCTTTGTCCCATAG
Seq C2 exon
TGGTGCTCAGCTCCTCTCCCATCACCGTTGTGGTCACACCGGAGGATGACACGTGGCACATCAGTGGCTCCTGCACGGCCGGTGGGCCGTTCATGGACTGGGACCAGACGGCAGAGGTGGAGCAGCAGGCAGATCCGCCCGAGGACACGCTCAGCCGGCCCCCCAAGGAGCTGAAGAAGCTGGCAAGGGAGGGCTGCTGGGCCGCCAGCCGCACGCTGAGGGCTGCAGCTTACCAGCGGCTGTGCCAGCGTGTCGCCTGCCGCCTCGTCACACCCGATGCCCTGGTGTATGGGGATGTGGCCACGAGGCTCTTTGGAAAGCACGGCGCCAGCTCCCACCCGCTGCCCGACTTCCTTGGGGGGTGCTCCCTGCCCACGTACTGCCTCAACCTGCACGGGGTCGCGGCGCTGAAGAAGATCCTCATCTGCATTGGCAACCTGTTCCCTGACATCACCTACAGCCCCGCGCTGCCCTCGCTGGTGGCTCTGCTGCTGCACTACAGTGAGGATGAGGCTCAGTGCTTCGAGAACATCTCCCGCCTCATCGCCAGCAATGCCCCTCACACCAGCTACATCGACCAGTCCTTCCTGGCCCACCAGGCCTCCTGCATGACGTTCGGGGACCTGGCCAACAAGCACTGCCCAGCGGCGCACAAGCTGATAGCCAGCACGTCTGAGAACGTCTTTGAGGTGTACTCCGAGTGGCTGTGGTGGCTCTTCCGCGACCTCCCCTTCAGCTACGCCATCCGTGTGTTTGACGTCTTCCTGCTGGAGGGGCAGAAGGTGCTGTACCGCATCGCCCTGGCTCTGCTGAAGCAGTACCGGCTGTCGGTGAGCTCTGCCCAGCAGGAGGGGTCTGACACCAAGGCAGAACTGCAGGCCTTTGTGCAGAACATTGCCCAGCACGTCACTGTTGATAAACTCCTGGAGAGAGCGTTTGGCATCCGGCTGTTCTCCCGCAAGGAAATCTGGCTGCTGCAGATGGCCAACAGGAAGGCACTGATGGAGAGGGGGATCACCATGGTGCAGGGCAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000001244:ENSGALT00000039321:1
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion (1st CDS intron)
No structure available
Features
Disorder rate (Iupred):
C1=0.921 A=NA C2=0.072
Domain overlap (PFAM):
C1:
NO
A:
NA
C2:
PF0056613=RabGAP-TBC=WD(100=44.6)
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
Mouse
(mm10)
No conservation detected
Mouse
(mm9)
No conservation detected
Rat
(rn6)
No conservation detected
Cow
(bosTau6)
No conservation detected
Zebrafish
(danRer10)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
CTGGATGGGGATGGTGGAGAC
R:
ATCCCCATACACCAGGGCATC
Band lengths:
342-1315
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]