GgaINT0046515 @ galGal3
Intron Retention
Gene
ENSGALG00000003578 | FN1
Description
NA
Coordinates
chr7:4403042-4403885:-
Coord C1 exon
chr7:4403685-4403885
Coord A exon
chr7:4403222-4403684
Coord C2 exon
chr7:4403042-4403221
Length
463 bp
Sequences
Splice sites
5' ss Seq
TAGGTATGA
5' ss Score
6.99
3' ss Seq
ATGCTGTGCCTTGTTAATAGCTG
3' ss Score
5.44
Exon sequences
Seq C1 exon
GATCTGGCTCTCCCAGCTTCACAAATGTGCAGACTGCGTTGTACCAGCCTCAGCCTCAACAGCCCCAACCTCAGCCACATGGCCACTGTGTAACTGATAATGGAGTGGTGTATTCTTTGGGTATGCAGTGGTTGAAGACACAGGGCAGCCAGCAAATGCTTTGTACTTGTCTGGGCAATGGAGTCAGCTGCCAGGAAATAG
Seq A exon
GTATGAGCTTTTGTTCAGTGCCCGTTCTGTCCAGTGAGATCTGTGGTTTTATTGTGATGGGGGGTCCCTTTGTATGTGTATCATATGTTTGCCAGAGAAGACATACTGGAAAAAGATGCGAGAGGTGAAAAATAAATAGTTGCTTTGGTTACTTGCAGCCTAGTTCTGTAGGGCAGAAATATTTCCCAGTGAGTTATATATATGACTACTAAGGCCCATGGGGAACAACATTCATAATTTTATTCAAACCAAGCTTCAGTAATATATGTTTAGAAAAGAATGTAAAAGAATGACACATCCACAGGACTAAGTCTTCTCTTGGTGTGTATTGGCCCAGGTCCATGGCAGTCACTGTGGGCTCCTAGCAGCCAGTGATTTGACCCAGAGGGGCTGTTGCTGCTTTAGAGCCCTTAGATTTGGGGATTGCTTTAAGCTGGAGTCTAATGCTGTGCCTTGTTAATAG
Seq C2 exon
CTGTGACCCAAACATATGGTGGCAATTCTGATGGAGAAGCCTGTGTTCTGCCTTTCACCTACAACGGGAGGACTTTCTACTCTTGCACTACTGAAGGCCGCACAGATGGGCACCTCTGGTGCAGCACCACTTCCAACTTTGAGCAGGACAGGAGATACTCCTTCTGTACTGAGCAGAATG
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000003578:ENSGALT00000005664:7
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.382 A=NA C2=0.000
Domain overlap (PFAM):
C1:
PF0003913=fn1=WD(100=51.5)
A:
NA
C2:
PF0004014=fn2=WD(100=68.9)
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:
TCCCAGCTTCACAAATGTGCA
R:
CCTGTCCTGCTCAAAGTTGGA
Band lengths:
343-806
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]