GgaINT1001641 @ galGal4
Intron Retention
Description
Uncharacterized protein [Source:UniProtKB/TrEMBL;Acc:F1NWS8]
Coordinates
chr2:42143407-42144591:+
Coord C1 exon
chr2:42143407-42143473
Coord A exon
chr2:42143474-42144049
Coord C2 exon
chr2:42144050-42144591
Length
576 bp
Sequences
Splice sites
5' ss Seq
AAAATGAGG
5' ss Score
-3.74
3' ss Seq
TTTTCCTTCTTAGTCTGTAAAAA
3' ss Score
-4.58
Exon sequences
Seq C1 exon
GCTTTGCCGTATCAAGGCTAGACAACCTTTCAAGATACAAACTGTACCAGTCACCAAGCAAAATAAA
Seq A exon
ATGAGGTTAATACCAGAAGTCAAAATTCATCAAGTAATAAAGTGTCCTAGAGTAAAACCCTAAGTACTTTGCATATTGGCATGCCCTGACCCCATTTCATGAGAACAGACACAAAACTCAGTGATAATTACCTGCAATCGAACATCGGGATACTTGTGGTTCTGAACAGGTGAATAGTCTGAACATTGCAGAATGCTGTCTTTTATGAAGAGATAAATTCATGGTATTCAGCGTATGAGTCGGGGGGTGGTTTTCTGATATGTGCAGACTACTCTTACCCTAGATCTTACTGTAAACGTACTAACTTGGAGGAAGTTGACCATATCAAATCGCAGAATTCTTTCTCTTAAAACTGGGAGATGAAGAAAGGCTCTCCAGTATTCTCTAGCCTTCTTTTACTTGTTAGCCATTAAGTCTCTTCTTCACTCTCATCCGTGTACCTGCTGAGGACATCTGTCTTCCCATTCTGTCATTTATGGCTTTTTGGGGGGTTTGATGTAGCTAAGGTGTTAAAGGTGCAGGTGTAATCTGTGATTTTAGCCTATTTCTTTTTTTCTTTTCCTTCTTAGTCTGTAA
Seq C2 exon
AAATGTGAGAGCTGATATTGTTTTCCTCGTGGACAGCTCGAACAGTATTCGTGCAGCTGAGTTTCAGAAGATAAAGGATTTCATGCAGTCATTTGTCATCAAGGTAGATGTTGGGCTTGATAATGTTCGAATTGGCTTGATTCAGTTCAGCTCTGAAATAAGAGAAGAGTTCCAACTAGACAGATACAGCACTATAGCTGATGTGCAGAGAGCCATTCAGGAAATGCAGCAGATAAAATTGGGAACACTGACTGGGAAAGCACTGACCTTTGCTGCCTCTTACTTTGATCGACCTAAAGGAGGGCGTCCTGAATTGAAACAGTACCTGATAGTGATCACTGATGGAGAAGCCCAAGATTCAGTAAAAAGCCCAGCCAGAGCCATACGAGACAAAGGTATCACTATATATGCTATTGACATGCTCCAGGCGAACAATTCACAACTTGTGGAGATTACTGGCGCCCAAGACAAAGTGTTCTTTGAGAGTGAAATGAACTTCTCAGAAAAGCAGATTCTCTTTGAAATTTGTAATCTACAGAAGT
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000011567:ENSGALT00000018866:13
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:
PF0009223=VWA=WD(100=94.0)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Conservation
Rat
(rn6)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
ACTGTACCAGTCACCAAGCAA
R:
TTTCAATTCAGGACGCCCTCC
Band lengths:
346-922
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]