GgaINT0005586 @ galGal3
Intron Retention
Gene
ENSGALG00000005824 | SUSD2
Description
NA
Coordinates
chr15:8083145-8084842:-
Coord C1 exon
chr15:8084641-8084842
Coord A exon
chr15:8083297-8084640
Coord C2 exon
chr15:8083145-8083296
Length
1344 bp
Sequences
Splice sites
5' ss Seq
CAGGTGAGC
5' ss Score
9.6
3' ss Seq
AATGTTTTCTATGTCAACAGATT
3' ss Score
8.66
Exon sequences
Seq C1 exon
GAGCTCAAGACTCCTGCTCAAGCCAGTGTGGGAAGCTGCTTGGTGCCTGTTCATGCCAGGAGATCTGCCAGTCCTTGGGGACCTGCTGTCCTGATTACAATGAATTTTGTCTCCACATTTCTCCATACTCAGGATCTCTGATGGGAGGCAAAGATTTTTTGATAGAGAATACAGCATTTAATACTTCTGTGTTAATGTGCAG
Seq A exon
GTGAGCCATGACTTTATGTTCCTCTGCCGAAGGGAGATAGCCTTTCTAATCTCACTTTCTAACAGTAGGTAAGTGCCTTAAATCAAGACTTGTCAATACAGGAGCGATAACTTACCAAAATCTTGAAACTTGCAAAGGTTCTGCTAACCCTCAAAGATACATGTCTGCATTTCTAGGCAGGATGGCTTCCTGTAGGTCGAGTTACTGTGTGATACAAGTATTTCTGTGTTAAGTTGTTTCCTTACAATATCATAACAGTGACTTTGTAAAAAGGGTTTCCTTTCTGAACTTCTTGTTGCTAGAACAAGGGGGATGGCTTTACGCTAAAAGAGAGGAGATTGAAGTTGGATGTCAGGAAGCAACTCCTCACTCAGAGGGCACTGAGGCCATGGCAGTGCTGCCCAGAGCTGTGGGTGCCCCATCTCTGGAGGTGCCCAAGGCCATGGATGGGCCCTGGGCAGCTGAGCTGGGGGCAGCCAGCACATGGCAGGGTGGGGCTGGGTGGGCTTTAAGGCCCCTCTGACTTCAACCATTTTATGATACTATGATTGGAATATTTTTTTAATATTCTATTTTGAGAAAAAACACTATTGATTTATTACACTGAAACAAGAAAGAGAAGTGAGTAGACACCTTATCTTTTTTCCTGCAAGACAAATCCTTGATCCTCAGTGTCAGCCTGTGACATACTTAGATACACATCACACATGCTACACATATGGTACACCACATTTCAATAGCCCTGATGTCCTTACGTTTTTTCTACAGAAGATTCTGAGTCAGATTTTAGTGTCCTTCCAGTCTGCATAGCAGAATTTGAGAAGACTTTAGTTTTTCAATGACTGCGTACTGTGAATTAAGTGAACTGTTGCTTTATCATAGCCAACAGAGATTTCAGTTTAGATGAGCACAGAAACTACTCCTTGGCAGACCCCAAACTTACAGCACTACTTGGAACAGCTCTGCAGTCCCTATACATCAGTCACAGGTAGGCTTATACTAAGGATGCCAGGCAAGAGCCCGGTCTGGAAGCAGATGGTTAATTTACAAGCAATGAGCTCTGAGTTTGTTACTAATTTATCTTGTCCCTCCCATAATTAAATAGTAAATCTAAGGCTTGCAACTTGCTGTGTATTTGTGCAGTGCACAGCAAAATCCACACTGCAGTGATAAGGACAAAGTACACATGAATTTTTCCTGTTTCTTTTCACTCATACAAGCAAACAGCCATGGGACTTGGAATGACCTACACATGACAATAGCTCCACAGTGAAACACGACTGAGACATTCACTGTTTTTCTGCTCTCAACAATGGCTCTGAGAAATGTTTTCTATGTCAACAG
Seq C2 exon
ATTCAAGCAGCAAGTCATAACCAGTGGCTATGTTGATAAGGATGGAAAAGCCCACTGCCTCTCCCCATTGCTGTATGAAACTGGTTTCATCCCCTTTGAAGTTTCTACAGATGGCGGGCTGACATTTCCCTACTCTGGAACTTGGTTGTCAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000005824:ENSGALT00000009356:2
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:
PF0103312=Somatomedin_B=WD(100=60.3)
A:
NA
C2:
NO
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Other assemblies
Conservation
Zebrafish
(danRer10)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
CAAGACTCCTGCTCAAGCCAG
R:
ACAACCAAGTTCCAGAGTAGGGA
Band lengths:
346-1690
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]