GgaINT0054937 @ galGal4
Intron Retention
Description
NA
Coordinates
chr5:14172790-14174180:-
Coord C1 exon
chr5:14173919-14174180
Coord A exon
chr5:14172905-14173918
Coord C2 exon
chr5:14172790-14172904
Length
1014 bp
Sequences
Splice sites
5' ss Seq
ACAGTACGT
5' ss Score
7.54
3' ss Seq
TTATGGTGATCTTTTCCCAGGAT
3' ss Score
6.84
Exon sequences
Seq C1 exon
CTGGCAACCCCTCTCACAATGGCCGTGTATGCAGCACATGGGGTAACTTCCACTTCAAGAACTTTGATGGGGACATCTTTTACTTCCCTGGGGTCTGCAATTACATCTTTGCATCCAACTGCAAATCTCCCTATGAGGACTTCAATATCCAAATTAGGCGCACCATGGTGGAAAATGCTACCGTGATCACTCACGTCATCATGAGGCTGGAAGGAGCAGTGGTTGAACTGACCCGCACCTCTGTCCTGGTCAATGGCAAACA
Seq A exon
GTACGTTCACATCTTCTACTATGAACTAAAACTGCTGGGACTGCTATCATTCCCAGAATGAGCAAGCATCCCTTTTCTTCATCTGATCTGATACTCCTCCCAGTCAGCTGAAGGGTTCTGGTCCTCCCTGAGGCATCAACAAAAATTAGAGTGCCTGACAGTGAGCTACATGCAACTTCTGCAGATTATCCTTGTGTGCATTTTGTTCAGAGGAGCTATATCCCAGATGCAGCCCCATTGCAACAATTGTCTATATACAGTTGATCGTATAAGTTTGGTTCAGCCAAAGTATTAGGCCTTTCCACCCTTAAGGTTTCTACTTGTCATTAATTTTACCAGATAGGAGCCCCCTGAGGAATTTCTGATTGTTCCTGTCCTTGCACTGAGAAATGCAGTTAAACACACTGCAACTACAGATTGCACCTGAGCTTTTAAATAAGGTAATCAGGGAACCTCCCACCCATGAAGAAATGGTAGCACTGACTTTGGAAAAAGGTGTGAAACCTATCCAAACGTTTGGGTAAATATCTGGACAGCTATCTCAGAGTGATCTGTGTACTATGGCAGCTACTTACAGTAAGCTAGACTAAAGGTTATTTTGGATGCAACTTTACGAACGGCACTCATGTCACAGAAAGCTTAAAGAGTCTATCTCTTCATTATCAAGGGCTTAAAGGAGTATTCAGCAATATCCTGAAGCATATTGCCTGCAAAACAGAATATCCCAGCACTTTTTTTGATCAATGTAACTGAAGACATGCCAACATTTTACCTTTAACAGAAATAAGCAAAAGGAACAGTAAGGGAAAGCAAGGCTAATTCATTGTGGACAAAGAAACAATCACAACAGCCAAATGTTAACAAATTTGAGCTGCCTGTATTTAGCTATTACTTTGGCTAATTTCCTCATCTTTGTGTATTGAAGCTTCTTAAAGAGTGAGAATAGGTATCAATGTGCATATTCAGTGGACATTCTGTCCCTACTCCCACTGAATTATGGTGATCTTTTCCCAG
Seq C2 exon
GATTCAGATGCCCTACAGCCATATGGGAGTCTTGATAGAGAGAAGCAACAGCTATATCAAAGTTTCTGCCAAGTTAGGACTGACCTTCCTCTGGAATGAAGAGGACGCCCTCCTG
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000006740:ENSGALT00000010867:3
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion (1st CDS intron)
No structure available
Features
Disorder rate (Iupred):
C1=0.012 A=NA C2=0.000
Domain overlap (PFAM):
C1:
PF0009420=VWD=PU(52.0=89.5)
A:
NA
C2:
PF0009420=VWD=FE(25.7=100)
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:
TGCAGCACATGGGGTAACTTC
R:
GGCGTCCTCTTCATTCCAGAG
Band lengths:
342-1356
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]