GgaINT0124315 @ galGal4
Intron Retention
Gene
ENSGALG00000003187 | SURF1
Description
Surfeit locus protein 1 [Source:UniProtKB/Swiss-Prot;Acc:Q800L1]
Coordinates
chr17:6869498-6870305:-
Coord C1 exon
chr17:6870224-6870305
Coord A exon
chr17:6869934-6870223
Coord C2 exon
chr17:6869498-6869933
Length
290 bp
Sequences
Splice sites
5' ss Seq
CTGGTAAGC
5' ss Score
8.69
3' ss Seq
TTTTTTACTTCTTGTCACAGGTA
3' ss Score
9.74
Exon sequences
Seq C1 exon
GAAGCACAGTCCCAGGAGGGCCCATTGGAGGCCAAACAAGAGTGAGCCTGAGAAACGAGCACATGCAGTACATCGTTACCTG
Seq A exon
GTAAGCTACCCAGCCAACGTCTGACCTTTGTTTTCTGTACATGAAGCCTTAAAATGCTTTCTGTTGAATCCACTGAAAGCAAGGAAATAATTTTTCCCCAGCATTCTTGCTCCTGCATCAGGGAGACTGATGAGATCTTTAGCTGCAAACTGTTTGGCCCTAAGTAGTATTTCCCAGATAGTTTGAAATAACTTTATTACTGAACTGCAGCTGATTTAGGGAACATTAATCAATCTTGGAAATACCATGTAAATGTTTTGCATCATTTACTTTTTTACTTCTTGTCACAG
Seq C2 exon
GTATGGCTTGTGTGCTGCAACTTCCTTCTTGTGGTACAGAAAATTTATACAGAAAATACCTCTGTGAGGGGAAAGATTAATTTCTGCTCTCCTGTGCTACAGTCAAGACTGCAGCCTGATCAATCAAGAACTTAATCTCAGGGCACGGGACTTACCAGCTGATGCTGGCAGCAGTTTGGAAGCACTGAACTTCAGAATTAGTGGTGGGTATTGACATGCTTGCTTACATCTGCTTTCTGGACCTGAAGGATGCATTTTTCTATTGTAGTTGGACAGTTTGGTCACAAGCTACAAAGCCTCTTCTTCTCCACTGCTATATTTTCTATATTCAATCTAAGCAAATGAGGCCAAGGGATTTTTCACGTAGCAGTCATTCCTAAAGCTAAGATGGGGACACTGCAGTGCCATCAGGATAAATAAAACAGGCCTGTTTAGT
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000003187:ENSGALT00000005056:8
Average complexity
IR
Mappability confidence:
NA
Protein Impact
Alternative protein isoforms
No structure available
Features
Disorder rate (Iupred):
C1=0.190 A=NA C2=0.000
Domain overlap (PFAM):
C1:
PF0210410=SURF1=FE(12.3=100)
A:
NA
C2:
PF0210410=SURF1=PD(2.7=26.1)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Other assemblies
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
GAGTGAGCCTGAGAAACGAGC
R:
TCCTTCAGGTCCAGAAAGCAGA
Band lengths:
293-583
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]