GgaINT1003514 @ galGal4
Intron Retention
Description
NA
Coordinates
chr4:51072179-51073793:-
Coord C1 exon
chr4:51073651-51073793
Coord A exon
chr4:51072373-51073650
Coord C2 exon
chr4:51072179-51072372
Length
1278 bp
Sequences
Splice sites
5' ss Seq
CAGGTAACC
5' ss Score
8.66
3' ss Seq
TCCCCCTCCTCTTTCTCCAGGGA
3' ss Score
11.93
Exon sequences
Seq C1 exon
GTCCGACTCCTAATGCTCTTCAGGAAGCAACAGTGAAACTTATCGACTCAGACACTTGCAACAGAAAAGAAGTGTATGATGGGGACATAACACCTAGGATGTTGTGTGCTGGGTACTTGGAAGGAGGAGTAGATGCTTGTCAG
Seq A exon
GTAACCATAGCTGAAAATTAGAAAGGAAAACTATTTTAATGCTGGTTCCAGTATTTGGCTGACGAAATCTTCACTAAAAGTATATTAGTCCTTTAAATACACTCTGTTCAAACAGGAATTAAGATGTAAAGTGAAGTAGTATTTCTTAAAATTATTTAGCACATAAAATCCATCTTGAAGGAGCTCAATTAGTATAATACTCAGAACTTAAACCTTTCATGGCATGAGATGAAATTCTCATTTTGTAACTCAAAATAGCCGCTAGGAGACCAATTGCTTCTCATAATATATTCTATGAGACCTAACAATTTTTCAAAAATAGTACCTGTATCCTTCATATTGATGCTTTATTCCCCCTTTGCTGTTGCCATTCTACACCAGGTCCTTATTTGCTGGACAGCAATCACTAGCAGGTGGTTATATTTTTGCAGGTGTTGGAACAAAAATATTACCACCTGCAAAAATATTTCCATAGGGATTACTTGTAAAAAGGCAACCACTATTAATGTTGCTTATTAAAAATACACTTGTAAGTGCTGGTTCAAAACAGACCCCTTCCAGAATCCCAGTCCTATGGATTTAAACAAAACTGCTTGCAGGTAAGTCCTGGAGACTTACCTAATTCCTTTGTTCCTGTCCCACTCAGCATTGAAGAGACCTGAACAGAAGGGTGCAGGTGCTGTGTATTTCAGTAATGCATTTTGCTGGTTGATGGGGAATTTGTTCTATTGTGTGACAATTGCCTTTAACCCTGAAAGATTTCCACTGAGCTATTATTGCCACATCATGCTATTAACAGTATCTGAATTTAGCCATTGAGAGTGACTAATGTCTTAAGGAGATATTATCTAATTAGAAGACCAATTTTCTGATGAAATCCTTTTTGAAATGTTATTGCTGCAAGTGACTAAAAGAGTTTGCTGAAAGGGCAGTGGTTACTGTAAAAACGAAAAAATGACTTTGTATGAGGAGAAGACAAAGCAGTATGAGGAATGCTTCACAAAACAAGAAGGAGACGTTTTGTTTGCTTGATTTGTAATGAAAGGGTACTGTACAATCACAGACAGGTCAAGAGACTTCGTGGCAAACAGGAAATAGCCACTGACTGCAGACTCAAATCTCATAAGCAGCCTGGATTCTGCACAGATGGCAGCTCTTGAAATACTGCTTGCTTTTCTGTCTTATGGGATGCATCAAGCCTTCTTGTCTGTGAAGAGACTTATATTTTCCCTTCTGAACAATTAAATTGTTTTTTTTTTCCCCCTCCTCTTTCTCCAG
Seq C2 exon
GGAGACTCTGGGGGACCGCTGGTTACTCCAGATTCTAGACTGATGTGGTACCTCGTGGGAATAGTGAGCTGGGGAGATGAATGTGCCAAGCCAAACAAACCTGGAGTTTACACACGAGTGACTTATTTCCGTGACTGGATTACCTCAAAAACTGGCATCTAATTCCAAAATCAAAAATGGATATAATTACATAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000026134:ENSGALT00000043388:3
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.042 A=NA C2=0.019
Domain overlap (PFAM):
C1:
PF0008921=Trypsin=FE(26.4=100)
A:
NA
C2:
PF0008921=Trypsin=PD(25.8=85.2)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
GTCCGACTCCTAATGCTCTTCA
R:
TTTGATTTTGGAATTAGATGCCAGT
Band lengths:
318-1596
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]