GgaINT0129714 @ galGal4
Intron Retention
Description
Uncharacterized protein [Source:UniProtKB/TrEMBL;Acc:F1NUF4]
Coordinates
chr18:2153272-2154760:+
Coord C1 exon
chr18:2153272-2153548
Coord A exon
chr18:2153549-2154069
Coord C2 exon
chr18:2154070-2154760
Length
521 bp
Sequences
Splice sites
5' ss Seq
TTGGTAATT
5' ss Score
5.73
3' ss Seq
TGCCCGGTGTGCTTTTGCAGGTG
3' ss Score
10.48
Exon sequences
Seq C1 exon
GTGCGCCCTGAGATGGAGAGGTACGAGTGGGTGTTCATCAAGAAGCCAGAGCTGGCCAAAGCCATGCCACGCTCGCGCCAGCGGTCACCATCACCCATTCCCACAGCCCCGCTCAGCTCCTCCCCGCACAGCCGCAGTGCCAGCCCCAACCTCCTCACCGTGCCCGCGCCGCAGCGGAAGGGCCGCCTGTCCCCGTTCCTGGCCATCAGGCATTTCCTCCTGCCTTCCAAAACAGCCTCCATGTTCATGTCTGGCTCTCGGGAAGGGATCGTTATTG
Seq A exon
GTAATTACCTAATGACAGGCACCTGTGTCGAGCACGCAGCTGCTCTGACTGAAAAGAGCTCCCCTCCAGGTTAAAATCCAAGCTGTCCAAAAGGCAAAGACCTCCTGTCTTAGTATATGTACCTGAAGTCAGGGGAGATGAAGTTAGTCCCCTCTTCCTCAAATCAGCAGGAGAATGAAGGGCTGCACAAGGGCACAGACGCCCTTTCTGAGAGCTCCCAAGCAGGTCCCAGCTGAGCAGGAGCCCTGCATCCCAAACCTGCCAGCCAGATGTGGCAGCCATGCCCTTCCTGGCCCTTTCCTCTGCATCTTGCACGACTGAGAGGAGATGTGGGTGGGGAATAGCTTGCAGAAGAGCTGGGCGTGATCCCCTGGGGCAGATGCACCAGCTGTCTGTGACAGCTCTGCGGTGTGGCCACAAGAAATGTTGCTGAGAGATGGGTGCAATCCCAAGACCTGTCCAGTGTCTGCTGGGGCAGCAAGGGGTGACCCCAGATCCCAGTGCCCGGTGTGCTTTTGCAG
Seq C2 exon
GTGGAGGGGGAGGCCAAGCACTGTCCCTCGACGCCAACCTGCTCTGGGGACGCACGGAACCCTGCGAGACCTTTGACAACCCTCCGCTCTGCCAGGAGAACTTCAAGGTGCAGCTGCTGGAGGTGTGGGGCTTCCAAAACACTTAGGTCCCACGGGCTCAGCTCCTCACTATGCTGCTCACCAAGACAGGACAAACATGGCACCAGTCACGGCTCCAGCATGACTGCTACGATCCCTGCCAGCAGCTCTGTGTGTGCCTCTGCTCGCTGTCCTCCCCTCCATTGTCACCAGCCATGGTTGCATGAGGAGGGCCATGAGTGTCAGGAATGAGGCTTCTCCCACAGCTCAGACCCAGCTCTGCTCCCACTCAGGATGCTAGAGGGGAGGCAGGTCGCTATTTTCTATGCTTCCCAGGTCTGTTTGTGGTCAGCAGAGCAGCAATGCCACAGCACAGGCAGCCTCTGTGGGAATCTTGAGTCTAAGATTCACCATAAGAGCTTTCCACCCCTCGCTTCTCACCCCAACGAGCTCTGTGTGGGCTCACGCAGCCTCTGAGGTTACGAGGACTCACTGGGAGCAGGCAGTGACGGCCATCCAACATGCTGCCAAAGGCTTTTTGTTTGCTCTTGTTCCAAGCTGCTGAGTGGGAAGCAGCAAAGCACCGCCTGGCATTTACACCTCCGCAGCCCAC
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000001244:ENSGALT00000039321:6
Average complexity
IR
Mappability confidence:
NA
Protein Impact
Alternative protein isoforms
No structure available
Features
Disorder rate (Iupred):
C1=0.344 A=NA C2=0.042
Domain overlap (PFAM):
C1:
PF0753411=TLD=PD(21.8=20.4),PF0753411=TLD=PU(39.5=32.3)
A:
NA
C2:
PF0753411=TLD=PD(59.2=91.8)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Other assemblies
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
ATGGAGAGGTACGAGTGGGTG
R:
GTCAAAGGTCTCGCAGGGTTC
Band lengths:
342-863
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]