GgaINT0005593 @ galGal4
Intron Retention
Gene
ENSGALG00000005824 | SUSD2
Description
sushi domain containing 2 [Source:HGNC Symbol;Acc:HGNC:30667]
Coordinates
chr15:7837015-7837725:-
Coord C1 exon
chr15:7837582-7837725
Coord A exon
chr15:7837171-7837581
Coord C2 exon
chr15:7837015-7837170
Length
411 bp
Sequences
Splice sites
5' ss Seq
ATGGTAAGT
5' ss Score
11.01
3' ss Seq
TTTTGTGCCTTTTTCTGAAGGAA
3' ss Score
8.35
Exon sequences
Seq C1 exon
CATCTGCTTTTGGGGATCCTCACTTCCTCACATTTGATGGTCTGAACTTCACTTTCAAAGGACAAGGGGAATACACATTGGTAGAGTCTGATCTCACATCCCTAAGGGTGCAAGGGAGGACCCAGCAAGCACGCTTTCCCAATG
Seq A exon
GTAAGTTGGTAAGAGAGAAAGCAGTGATGATAAACAACAGCTTCTGAGGTTGCTTGACTCGCTCTTTACAGTATTCGTTATATCTTCTCTGGTCGTCTTTCTCCCTCTGCCTTCTTAATTCCCAGCCTATGGCTAGTGTCTCTCTGCGCTGTTCTCCATTCACAGGCTGATGAACACCTCACATTGATGTTATTACCAGCAGAAACACAATTCCTTTTCTCAAAGTAATTGCATGCGTTCTGGCATTCTGCTACTTTATCACATACAGACATTTTAGATATCCAGGTGCTACGTGTTTTCTGTTTGGCTTGTTGCTGCTGTTTTGTTGCCTGTATAATTACCACCTTCCAAATTGAGTTTATTTGATGCAAGGTAACTTGAGAAGTTGATTTTTTGTGCCTTTTTCTGAAG
Seq C2 exon
GAACTCAGGCTCAGGTGACAGGCCTGTCTGCAGTGGCCATGCAGGAGAACAACTCCGATGTGATTGAAGTACGCTACTCAGAGGATTTGAATCTGGAGGTCCTGTTGAACCAGAGGGTGGTCAACTTCTCTGAGCAAAGTTGGATGGACCTGGAAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000005824:ENSGALT00000009356:9
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.061 A=NA C2=0.038
Domain overlap (PFAM):
C1:
PF065357=RGM_N=FE(54.5=100),PF0009420=VWD=PU(28.9=98.0)
A:
NA
C2:
PF065357=RGM_N=PD(12.5=20.8),PF0009420=VWD=FE(31.3=100)
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:
TCTGCTTTTGGGGATCCTCAC
R:
CCAGGTCCATCCAACTTTGCT
Band lengths:
295-706
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]