GgaINT0005594 @ galGal4
Intron Retention
Gene
ENSGALG00000005824 | SUSD2
Description
sushi domain containing 2 [Source:HGNC Symbol;Acc:HGNC:30667]
Coordinates
chr15:7835867-7837170:-
Coord C1 exon
chr15:7837015-7837170
Coord A exon
chr15:7836116-7837014
Coord C2 exon
chr15:7835867-7836115
Length
899 bp
Sequences
Splice sites
5' ss Seq
AAGGTTAGT
5' ss Score
8.54
3' ss Seq
TCATTCTCTCATCATTTTAGGTC
3' ss Score
11.92
Exon sequences
Seq C1 exon
GAACTCAGGCTCAGGTGACAGGCCTGTCTGCAGTGGCCATGCAGGAGAACAACTCCGATGTGATTGAAGTACGCTACTCAGAGGATTTGAATCTGGAGGTCCTGTTGAACCAGAGGGTGGTCAACTTCTCTGAGCAAAGTTGGATGGACCTGGAAG
Seq A exon
GTTAGTTACAGACATCAGCCTTGAAAGCTATTGTATTTCTCTGGAACCCCTCTAGAGCTAAAAAGATCTCTACATGCCTGCATTTCCATCCTATTTTCAGTGCACTTTTGAGAAACAGCCTACGGGTCACTCTAAAAATTAAATATCCCAGATAATTAGACGTTATTATATGCATTTCTTCAGTTGTTGCCAGATTGAGGCAGAATCAGTGGTAATAAACAGCTAGACCTTGGTGAAAGATATGGGAAGCATGGGAAAGAATGTGCTTTCCATCCAATCTGCCTTGCTGGCTGTGTCTTTATACAGAGAACAAATTCCTCTTGTCTTCAAGACCGATTATAGCTACTCTGTGGACAGGAATATAAACACCAGAGTTATGGGCCACTAATCTCCTTCCAAACAGCTACAGAGGCACACACTGTGGCTGTGTCCCCATGGAGAGATGTAGCAGGGAGATGCAGCCTGGGTCAAAGCATCACATCCTATTACTTTCATGCCTTTCAGTATTGCTGGCAGTTAGCATAGCAGTAATACCAACACCACCAGGAAGAGGCAGAGTCATTGGATTTGTAGAAGACAGGCATCTTCTCCTCTTCCATAAAGTCCAAGTAACATAAATGACAGCCTTCACCAACACTTGGTGCTATCCTGAACTTTTGGGGATGTGTAGAGAAATACAAAGAGAGGGAAATTCTGGAAATGGTACTGAGATGTTTGACTTCATTTCTCTACAAGATAATGAAAGATTACACGAATGAAGCAGGCATTGATTTCCCTTCTCATCCCATGGAGGATGAAGAGAATTACTCCTCCTTGCCAAGGAAGAGAATTAGTCCTTACTCCTCATCCATTCACTTTGTGTGATTAACTATTTTGTCCTCATTCTCTCATCATTTTAG
Seq C2 exon
GTCTCTTTCTTCATTCTACGGATGATCAGAAAGTTACAGTGATGTTCTCCTCTGGGTCTGGAATGGAGATTAGGGGAAGTGGAGGATTTCTGACCCTGACAGTTCTGCTCCCAGAGAAGTTTATGAATCACACTCAGGGTCTCTTCGGAGTGATGAATGGTAACACAGAGGATGAGTTTACCTTCAAGAATAAGACAACCATGTCAGTTCATGCGAGTCCCCAACAGTTGTTTGAGTTTGGAGCCAGTT
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000005824:ENSGALT00000009356:10
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.038 A=NA C2=0.036
Domain overlap (PFAM):
C1:
PF065357=RGM_N=PD(12.5=20.8),PF0009420=VWD=FE(31.3=100)
A:
NA
C2:
PF0009420=VWD=PD(39.2=77.4)
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:
GGCCATGCAGGAGAACAACTC
R:
AAACAACTGTTGGGGACTCGC
Band lengths:
355-1254
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]