GgaINT0136171 @ galGal3
Intron Retention
Gene
ENSGALG00000001608 | UNC5D
Description
NA
Coordinates
chr22:1914236-1916281:+
Coord C1 exon
chr22:1914236-1914414
Coord A exon
chr22:1914415-1915727
Coord C2 exon
chr22:1915728-1916281
Length
1313 bp
Sequences
Splice sites
5' ss Seq
CAGGTAATG
5' ss Score
9.43
3' ss Seq
CCTTTCCCTGTTCCCCTCAGGAA
3' ss Score
11.08
Exon sequences
Seq C1 exon
AATGAAAGAGAAACCATTGCTTTCTTTGCACACGATGACAGCAACTTCCCTGCACAGATGGGTGCAAAAGCATTCAAAATCCCATATTCCATCAGACAAAGAATCTGCGCGACGTTCGACACACCCAATGCCAAAGGCAAAGACTGGCAGATGCTAGCACAGAAAAACAGCATCAGCAG
Seq A exon
GTAATGGGAAGCAATTTTGAAAGGTGAACATTTACATATGCAGCAAGAATAATCGGCTGCTATTTTGTTATGGGGTGTTTTTTATTTGCTGGTATTAAGGATGCATAAATAGTAATTGCCTTCCTTACTCTCAAGGATAAACTGTAGCTCGTATATTCTTTTATATACTATTAGTGACTGAAATCAGGACCTGCCTTCCCCTCTGAATAAACCCACCCCACCTGGTGTTGTCTTCTAAGCTCAGGTTGTGACCCACAGTAGTGGGGGGTTGGTCAGGACAGGACTCAGAAATGACTGTGAACACAGCAGCTGAGCAGCCGTTGTGTGGCTGCCATCCCTGATGGGTTTTATAGATTCTTCTAAGGAAAAGGCATATTTCAAAGGAAGTTATGCTCTACTGTTAGGAGCAATAACGTTATGATTATTAAAACTGAAAGGCACTATAAAAACTCATTTACTGCTTATTTTGCATTTCCCACTTTGCTAAATGGGAAATTGTGGGGAAGGCATTTGACTCAGAAATCTTTTCTGATTGTCACCATCTCCATTAGTACGGGCCAAGGAGTACAGAAGATGAAGCAAAACAACTTCCTATTGCTGAATTCCTTTTCACAGGGTTGTCAATAAATCAAAACCAAACCAAAGAAGAGAATAAAGTCACAGCCAGGCAGCAGTGAGTCACAACACTGTGCTTTACCTACCGCTGTTTGCTATGCATGGTCATGCTCTTCAATCCTGAGGAATTTTTGCTTCCTCAGGAAACTGAAGGACAGTGCAGAATAGAGATTGCAATGGTTTGTGCAAGACTGAGTCTGTGACAGTTCCTTCACTTCTGATTCTCCCTTGGATGCACCTGGATGGTGCAGCATGCATTTCTATAAATCAAATGCAGAGGTAGGAAAAGAACGTCCTCGAGCAGTTTAAATGTCCTGAAATGAAATGATAAAATTTAGAGGGTAGAGCAAAAATCAGGACTTGACTGATTTTCATCTAGCTGCGATCTATTAACATCATCTATCTATTTAAAAAATAATAATCAAAAAATGGACCACTGCCACCACTGTAGTTCTGCTCACATCGAGATATCAATGGACAGGAGTGACGTTCAGGCTTTAAGTCCTCATTCTGGACAGGGATCTGTTCCTCCATCGTTCTGAAACTGTTAGGAGCTTTGCTATAAGAGACTCCTACAAAGCTAGGCTTGTGCTGCACACATCAACTACTCACTAGGACTCCCTCTACTCATCCAATTAGATCTTGGTGAAGGTTTCTTATTCTAATCCCTTTGTTCCACCTTTCCCTGTTCCCCTCAG
Seq C2 exon
GAATCTCTCCTATTTTGCCACACAAAGCAGTCCATCTGCTGTCATTCTGGACCTCTGGGAAGCCCGACACCAACACGATGGAGACCTCGACTCCCTCGCCTGTGCCCTGGAGGAGATAGGAAGGACACACTCTAAAATCTCAGACATAACAGAGACTGAGATCGAGGAGCCTGACTTCAACTACAGCAGACAAAATGGACTTTAGTCCTTCATTTCCATCGAAGAACCGACGGCCAGCTGACTTTCACACCTGAAAATCTCTTTGGCAGGGAGGAAATAAGGGTTTCTGCACACTGCCCAAGGAAGCAGCCGTGTCTCCACAATGCCATTTTCAGTTGGAGGAGCAGAAGAGGCCCTAATAAAAATCATCTCTGAAATAAGGAAAACAAGCTGTCCCTGTGCTGCAGTCCTCTTTCATTTAAAATTCATGTTTCAGATTCAAAAACAAGACTGCACATCAATCATTCCCAGGGGCAAGAAGGAGCGAGGTACGGAGCTGTGCAAGGTAAATATTATGACATCCTGCATTTAGGAAACAGTGATGCTAAAGAAGA
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000001608:ENSGALT00000002447:15
Average complexity
IR
Mappability confidence:
NA
Protein Impact
Alternative protein isoforms
No structure available
Features
Disorder rate (Iupred):
C1=0.033 A=NA C2=0.162
Domain overlap (PFAM):
C1:
PF0053117=Death=PU(36.5=45.0)
A:
NA
C2:
PF0053117=Death=PD(62.2=66.7)
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:
TTCGACACACCCAATGCCAAA
R:
ACCCTTATTTCCTCCCTGCCA
Band lengths:
349-1662
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]