GgaINT0137478 @ galGal4
Intron Retention
Description
NA
Coordinates
chr23:4322431-4324570:-
Coord C1 exon
chr23:4324049-4324570
Coord A exon
chr23:4322499-4324048
Coord C2 exon
chr23:4322431-4322498
Length
1550 bp
Sequences
Splice sites
5' ss Seq
CAGGTAACT
5' ss Score
8.63
3' ss Seq
AATGTATATGTTTTCCTCAGTTC
3' ss Score
6.77
Exon sequences
Seq C1 exon
GTAGTGAAATCCTGGATGCAGAAATGTCTGAGGACACTGTCCACAACTTACCAACTGCCCTCGACAGCGTATCTTATGAAATACAGAATCGAGCAGGATCTGAAAACTCACTGCTGGATGATGACGACGATGATGATTATTTTCTGAACTCTGGGGATTTGGCAAGCATACCTGTTGTTGGGAGTGACAACGAAGATGATCAAAATTTCACTCCGAAAGACACTCTCCCATCTGAAGACCATCTGGAAGAGGGCAAGAGGATTACAGAACACGAGCTGGACAGTGAAAAAGATATTCAGATCGAAAATGCAATCCAGAAGGATCTCACTTCACCTTTTGAGCAGGGTCCTGTATTTAAATCAATTCGAAAAGATTTTAGCATAACGAGAGATAATGGCAAAGAGACTTTTTCAACAAAGGACAAGAATAGAGAAGGAAATCTTCAAGAACATGAAAAACGGTTGGAAAAAATCCCTAAAGATACGGATTCTAGATTGAAAAGCAGTTTTCTTGACAAAGCAG
Seq A exon
GTAACTGTTGACATCGTAGACCTGGCTATCCAGCAAGGAGGAAGGAAGAGCTAGATGGAAATTAGCAATAGGAATAGTTAAAAACATCATCTCGGCGAAGATACCATGCATTGCTATATGGAGGGAAACATTTTATCCAGAACCCTGAAATTCAACGACCTGTGTTAGGAGTAGGATGTGCAGAAGGGCCTGGCAGCATTAGGGGGTGTCTCATCAGCCACAGCTTGTTTTAAAACCTCATCATATCCTTTGTTGTTGTGGTTTAGTAAACCAAACTGGGTGACACCTTAAGCTTCCTTTTGGTTTTCTGTCATCTAGCCCCTGGAGCTCCTTTAAAGAATAGATGATGACATTTAGGTTTTGGCCAGCAAAGACTTTTTTGAGCAGAGTGCCAATTCTTCATTATTGCCCATGCTTAAAGCAGCATGCTTTTCATAGTAACATCACAGGAAGGCTTGCTAGAAATATTAGTGTCTGCAGGAAGTCAGCCAGGGAGTAACTTGAGATCTGCTTTTCCTGGGAGACTGCTCTCCTTTTTCTTCTGATACTTGCATCTTGGACTTTGTCCAGCAACATGGAGAGAACCAAAGATGCCTGTAATGCATTTCTGATGTGAGAGAGCCTGAAAGTCACCAGTAGTCTTGCTGCCCACACACCTGGTTTTGATTTCCCACGCTCTGAAAATTACAGTAGAACAGTGAATGAGAGAGTTAAGAATAACCGGGGTGGAATGTGCAGTCTAATTTCATTCAGAAGACTGTATAGAGTGAGGGCTGGCCAACAAGTGAGAGCCTCTGCCTGCTTGTTGAGATCCACAGCTTAAGTTTCTGATATTTAAATTTTGTACATATAGCAGCACTGTCTTAAAATCAGTGCTTTCAGGTTCCACAAATGATAGAGAAACAATACCAATTTTTCTTTTTTAATAAAAAAGAGTTAAAGGTATCTTTTTACTCTTGCCTTCAGCTAGAAATCTAGTAAAGAATTCTTCTGTGCAAAAGACTTATTTCAGAAAATTGTAAATATCCACTGTAACAAAGTTGTGGCTGAAAGGTGTGCAGCCTCAGGAAGGGTAGCCCGTAATTGACCAGCTTTAGTGGATGCTCATGGGCAGCATCAAATAACCAGGCAAATCCAGTATTTTAAAAAGATATATTGCTAAAAACCTGCTGTTTCCTAAGAAAAGGGGAAGAGACAAAAGAAACAATGAGAAAGATGAAAGTTGTTGCCCTGAAAATTGTTTTCTGATTTAAAAGTGGAAACATGGCAGAATTTGGAACTCAACAGGGTGTAAAAGGTTCAGAATGAACAATTCTGCCTCAGAATTATGTTTTGCTGGTACGAGAAAATAGTGGCTCAGAAGACTAATAAGAATATCAATTCTCTTTAAGGACTACCATCTTATTTACAGGGAAGAGCAAGGGAGTATTTTAATGCTTCTGAGGTGCTGTGAGGCTGTGGGGTTGGGGATCAGTATGAGACTAAATAGTTTTTAAGGAAATGCATTGGAATCTGTATTCATTTCTATTTAATGTATATGTTTTCCTCAG
Seq C2 exon
TTCATAATCAAGTAGAAGAAACATTACGGACGCAGTTAGCGCCACAAACTCCAGAAACTAACTTCAGG
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000002499:ENSGALT00000003942:3
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.891 A=NA C2=0.957
Domain overlap (PFAM):
C1:
NO
A:
NA
C2:
NO
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:
CATCTGGAAGAGGGCAAGAGG
R:
AGTTTCTGGAGTTTGTGGCGC
Band lengths:
342-1892
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]