GgaINT0105025 @ galGal4
Intron Retention
Description
Uncharacterized protein [Source:UniProtKB/TrEMBL;Acc:F1NEW8]
Coordinates
chr1:75842359-75843921:-
Coord C1 exon
chr1:75843763-75843921
Coord A exon
chr1:75842587-75843762
Coord C2 exon
chr1:75842359-75842586
Length
1176 bp
Sequences
Splice sites
5' ss Seq
AGAGTAAGT
5' ss Score
9.35
3' ss Seq
ATGCCTCTCCTGTATCATAGGCC
3' ss Score
8.83
Exon sequences
Seq C1 exon
ATCACTGTGACAAATGCAGATGGCAAGCCTGTTCCCAGTAGGGTTGTTGTGCTGGAGGTCAATGGAGAATACCAGGCCAACTATACCACTGATGAGAATGGCACGGCAGCCTTTTCCCTTGACACGTCCAACTTCTTTAATCCCACTGTTAAGCTGAGA
Seq A exon
GTAAGTTCAAGCTCTAGTCTAATTCCTGAAAAATTTCTTCAACAGAAGGAAGAATCAGAAGCAAGCAGTGGATGCTGGCAGGTTTATTTCGGGTGAAAAAAACAGGCAATTAGCCCAGCAACACATGCAACCTCTGTGAAACTAGTATGAGAAAACACTAATGCTGAGAAGCAAAAGACTGTACCTCAAGAGTGATCTTCAGCACAACTCTATTTTTTTTTCTCAGCTCTGAAGCCCTTTCTGCTGTCATCTTCCTTCTTTCTATTCCATGAACTAGAGAACCTTTCTCAAAGCCTGCCCTGCTTTTCTGATCCAGCCTGGGTGCATGCCAGCCTGCTTCCCTACATTTCTGCTGACACTCATGCCCATTACCATGGCATGGTCTTCCCAAGTTACCATGCCAGCTTCATTGCCCTTTCCTGGACATGCTCCAGAGCCTCGATGTCTTTCTTGTAGTGACAGGTATATTACAGTATATTACAATATATTATAATATTATATATATATATATAATACTGTATTATACAGTATTATAATATATATATTATATAATACATATATATATGTATTATACAGTATTATAATATATATATCATACTGAACACAGTATTCAAATTGCAGCCTCTCCAGTACTGAGCATAGAGGGACGATCACTTCCTTATTCCTGCTGGCAACACTATTTCTGATACCAGCCAGGATGTCATTGGCTTTCTTGGCCACCTGGGCATGGTAATGATTCATGTTCAGCTGAGTGTTGACCAACATCCCCAGGCCTGTTTCCTCTATGCAGTCTTCCAGCCACTCTACCCCAAGCTTGTAGTGTTGCCTGGAGTTACTACTACTACGGAGTGCAAAAGCTGGCACTCCGTCTTGTTGAACTTCATCTCATTTGCCTCAGCCCAGTGCTCCAGCCTGTCCAGATCCCTCTGTAGGACCTTGCTACCCCCAGGCAGATGGACACTTTTGCCCAGCTTGGTGTCATCTGCATGTGAATATATCATGTCCTGCAATCCCTGCACTCTGGACTACTGAAATACAAGTTTTTCAAACCAGCCTCAAAAAACCTGTTTTCCAACAAAGTATTTTAGATGGAAGATGCTTTTGCCTCTCACTTACCTGCCAGTCTTTTAATTTCCACTCTGTTGATTCCTCACGTATGCCTCTCCTGTATCATAG
Seq C2 exon
GCCACACAAGCACCAGATGACTGTGCAGATTTCTTTATGTGGAGAAATGATCATGAGTCCGAAGCCTTATTTTTTGTCCGTCGTTTCTACTCACGGACCAACAGCTTTGTGAGAATTGAGCCAGTGGAGGAAAAACTAAGGTGTGGCCAGCAGAGAATGATCAATATTCACTATGTCCTGAGTAGAAAGGGGTACAGAAATGCCACCCACACAGACTTCTACTATGTG
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000011930:ENSGALT00000019460:11
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:
PF0236911=Big_1=FE(83.9=100)
A:
NA
C2:
PF0236911=Big_1=PD(9.7=7.9),PF077039=A2M_N_2=PU(25.8=51.3)
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:
GTAGGGTTGTTGTGCTGGAGG
R:
TAGAAGTCTGTGTGGGTGGCA
Band lengths:
343-1519
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]