GgaINT0058644 @ galGal3
Intron Retention
Description
NA
Coordinates
chr5:15813843-15815850:-
Coord C1 exon
chr5:15815732-15815850
Coord A exon
chr5:15813934-15815731
Coord C2 exon
chr5:15813843-15813933
Length
1798 bp
Sequences
Splice sites
5' ss Seq
CATGAAAAT
5' ss Score
-6.11
3' ss Seq
CTTCCTCTTGACCTTTCCAGTAT
3' ss Score
8.29
Exon sequences
Seq C1 exon
TTGATGGCTGCACCTGTGTAAATGGAACCTACATGGATGAAAGTGGCAAATGCGTGCCTGCTAATGAATGCCCCTGCTACTACCGAGGATCTCCCATACCACTTGGAGAAGTTGTCCAT
Seq A exon
GAAAATGGGCTTGTATGGTAAGGGAAGCTTTTGCAAAACATTCAAACAGTAGTATATGCATTTTATTATCTAAAGAAGCTTCATTTAAGCTTCTCTCACCCTGCCCTGCGTGAGTGTCAATACAGCGCTCTCAAACATTTTTAAAACTTTTAAGAATGATATATACATCCAGATTGATAGAGCAACTGTATTTAGGGGTATTTTCTATTTAATTCTATGATTTTTCAAGCATAAAATATATGACAGAAAAAGCAAAGGAGAAATTAAATAACAAGCAGAAATATATCCATTTCAAACTCTAATTTTTCTGTTAAGCAACGATATGAAAGCATAATTGATAGCGGTGTTAAAACTCTTCCCTGGGACTGCAAAATAGTATTCTGGAATTCAATTCATTCCTTAGAAAGTACCTAAACTTGACAGAAATAGCTCTCAGTCTCAATACATGGTTAAAAAGTAATGTTTTTCCTTATCTTACAGCACTTGTATCCAGGGAAGACTGAATTGCATTGGAGCACCAAATCAAATTCCAGGTTAAAAAAAAATCCTCCACTTGCACTTGTCTTTTTCTCTGTGCCAGGTTTTGAAAAGAAATATTTGTAGAATTCATATTTCTTGATGGATTTTTAAATAATAGAAGTATTTCTATACTATAAAAGGCAGAAGCAACCCTGAGTTCATAATGAGATCTGTTCTAAAGGATTTTTTTTTCTGATATACTGTGGTTCTGCTTGGTTCTGCTTGGAAGGTTCTGCTTGGAAGTGAATCTATAATTGGATTCCTGTTTAGCAGACTGAGTAGGGACAGAAGTCCTTACTAAGTGAAATGTACAAATTCCAAAGAATTTCTAGATGCTTTTTATGGCTACAGCTTTGTGGCAAACCCCATGCCATTTCTTATTTCTCTCACTTCTTTCCTTCCTCTAGTTTGTGAATCTCCCATGTTCTACTTAGACTGTAGAAACAACACAGCGGGAACAACTGGAGCAGAGTGTCAAAAAAGCTGTCAGACTCTGGATATGCAATGTGTATGTTATGGCTGGATGAAATAGCACTTTGAAGTTTTGTCTGTCATCTTTGTGCTACAGTCATCATTGATCTAACTTTTATATTCTTAATCTATATCACAGATACTTTGTATGCTAAAATCCCCAAAACATGTTATGAAGTGTTAACAGTAGGATCATCAACATAAAATATAATGAAGTAACATCCAACTTTTGTAAGATCAGTGTCAAAATTTCTTCAGCTACTGTTCATAAGAGTAATTAGTGAAAATATTCAGGGCTTTGCCACATATTTTACTTCCTTAGGAGAAAATTACTTGCTGTAAGCTGGCTAGGAGCAATCATTCCTTTCCATATGTGAATTTCTTGCACATCTAATTATATCTCTCCGTCTAAGTGCATGATAGCCATGTGTAATTTCATGAATAGGTACCATAAGAGATGCTGTTTTCAGTGCAACTCACTCAAACTAAATTTACTTACTTTCTTTTTAAAGTCCATTTGTTCAATCACAAGTCACCCATCACAAAGCATAGGGCCTCTTCAGCTAACACTGAGCAAGTCTTAAGATCCAGTATATTTCAAATTTCACAGACTTGAACAAATGCATTTAGAATTAGAATACATCAAATGTTTAGAAGCTTTATATGCTAATAACTTCATCTTTGTTCTGGAGGCCAAATCTTCTCTTATTGAAGCTGGGCAAAAATAGAACATATAAAGACATTTTAAGTTAATCTAATCTTCATTTTTCTTCATTCTGACATTGTATCTTCCTCTTGACCTTTCCAG
Seq C2 exon
TATAGCACACAGTGTGTATCTGGCTGTGTGTGCCCATCTGGGCTTGTTTTAGATGGGAAGGGTGGTTGTATTCCTGAAGAGGAATGTCCAT
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000023540:ENSGALT00000039116:13
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:
PF0182612=TIL=PD(43.4=57.5),PF0182612=TIL=PU(14.3=12.5)
A:
NA
C2:
PF0182612=TIL=PD(80.0=90.3)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Conservation
Human
(hg38)
No conservation detected
Rat
(rn6)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
TGATGGCTGCACCTGTGTAAA
R:
CCTCTTCAGGAATACAACCACCC
Band lengths:
200-1998
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]