GgaINT1001072 @ galGal4
Intron Retention
Description
NA
Coordinates
chr5:14342808-14343672:-
Coord C1 exon
chr5:14343634-14343672
Coord A exon
chr5:14343330-14343633
Coord C2 exon
chr5:14342808-14343329
Length
304 bp
Sequences
Splice sites
5' ss Seq
CAAGTAAGT
5' ss Score
10.08
3' ss Seq
TACAAAATTAACCTTCTCAGAAT
3' ss Score
4.63
Exon sequences
Seq C1 exon
TTTCTATTTCAGTTACCACAAGTCGTCCAGTACCTACAA
Seq A exon
GTAAGTTTTGAATATAAAAACTAGTTACCATAAAATGTCAAATGATGAGTAAATTAAAGGTGGCCACTATTGAAAAACATTTTCAAAACAAACAAACAAAAATATTTTAAAAACCTGGAATTGCAAAAATGTGAGAAGTATTAAGAGGCTTCAGATTGGTGATTCTATTTTGATACAAATCTTCTTGTTGAAGAAACTGGTCATATTTAATCAATTTTAAAATTCTTTTCTCTCGCAAAAATGGCAAATTGCAGTGCATTATTTTAGTCATTAATGGAGCTGAATACAAAATTAACCTTCTCAG
Seq C2 exon
AATGTCTTCTGAGCTCTGATACTGAACCTATGTCTTTTCTTGCAGCTCCATGCCTTGTATTAATCTGTGATTGGTCTGAGTGGTTTGATGTTAGTAACCCTGAAGAAGATGGTGGTGACTATGAAACCTATGATGCAATAAGAATTGAACATGGAAACAAAATATGTGCAGCTCCTGAAAATATTGAATGCAGGGCTAAAGACAGTCCTGATAAAACCTTAGAGGAACTTGGCCAAAAAGTGGAGTGTAATGTGACGTATGGGCTCATCTGTAAAAATGAGGAGCAAGATGCAAGTATCTGGCATCTTTGCTATAATTATGAAATCAGGGTAAACTGTTGTGAATGGCATGAAATTCCTTGTGACGCTGGACCAAGCTCAACACCAACTGCATCTTCGGTCACCACTGGAACAACTGTGCCCACTACTACAACCCAGCAGTCAACGACAATTACCACCATACCAACACCCACTGCAACCACCACAAGCCAGTCTCCACCTTCAGTAACTTCAGGCTCCACAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000006744:ENSGALT00000010869:28
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=0.314
Domain overlap (PFAM):
C1:
NO
A:
NA
C2:
PF133301=Mucin2_WxxW=WD(100=52.0)
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:
TTCAGTTACCACAAGTCGTCCA
R:
CAAAGATGCCAGATACTTGCATCT
Band lengths:
342-646
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]