GgaINT0109144 @ galGal3
Intron Retention
Gene
ENSGALG00000008309 | CCDC146
Description
NA
Coordinates
chr1:13691453-13693283:-
Coord C1 exon
chr1:13693146-13693283
Coord A exon
chr1:13691702-13693145
Coord C2 exon
chr1:13691453-13691701
Length
1444 bp
Sequences
Splice sites
5' ss Seq
AGGGTAAGG
5' ss Score
9.16
3' ss Seq
TACTTGGTTTCTGATTCCAGATA
3' ss Score
6.16
Exon sequences
Seq C1 exon
CTGGAGGTGGAGCTGGTACAGAAGGAGGAGAAGCTGCTGGAGACAGACATCATCTACCAACACATTGCCCGGCTCACGGACAGGATCCGTGCCACAGCAGAGAATGGGAAGCAGGGCACACTGCTGCTAGCAACAAGG
Seq A exon
GTAAGGAGGGCATGCTCTGCCCACTGGCCCATAGGAAAGCAAATTCTATCTGGGCAGTAGGTGAGATGACTTGCTTGCAAAATACTAAACTAGCAGCTGGAATTAGTGACAGGCAAACTGTACGTTAATCTTAAGAAATGACAGACATTTAGTAATCACAGTAATATAGGCACAGCAAGAGCATTAGGAATGGACTTTCTTTTTGAAAGAAAATTGCAGCATCAATTGGTGTCTCACCAAAACATGCACTAAGTTATTTCTCAGGTCCAGTGCTTCCAGACATGAGACCCAAAGAAGGAAGGGGAGCTCTGCAGTTGGCCTGTACTTTCATCAAGCAAGCTAATCCAGACATTAAACAAAAACTGCAAAAACTGGAAGGAGAGGAGGCCTGATCCTTAAGTAAATTACTTGAGGCTACTTGGAAAGTGTATAATAACAGAGAGAAAACTGAGAAAGCAAAAGAAAAAAGGACAGAGACAGGAAGTCAGTGGCATTGGCCAAAGCACAACAAACACAGTAGCAGCCAAAAACAGAAATCTTCCCACCTCCACCTCCTTGATGGAAAAGCTTCAAATAGATCCAAACCCAGAGACAGAGAGAGAGAGAGAAAAAGAGAGAGAGAGAGAGAAAGAGAAAACAAACACCACAGTGATGTAATTAATGTACAACAAGGCCAGGGCTGACTTGCTTTTCTTTGTTATTAACTCTGGCACTCAGGCTTAAAATCAGAACACATCCCTAGAGGAAATCTTTCATTTTCTACAGAAAGAAATAACATGGCTGCCATTTGCCTGTGTGAGATTACAGCCACTGGCTAATAAATTAGTGTACCAATGGCACTGTGCCAGAAGTTACGTGCTCTGACCCTCCCAATTCTCTATTAGTTACTTTAAAAGCAGCATTTGAGCTCTTTTATGCCTTTTTTAGTATATATATAATCTTGATTTTTAACCTCTCTCCAGTCAGAATCAGATTCCCACTCCGTTCCCTTTCTGTCCATCTCCCTGCTAAGGATAACTCAACACCTCACAAAACAGCCGTGTCCACGTTATCACTGAACTGCCCTGTGAGGACTGGACTTAACACACTTGTTAATAATGCAGTAATTGTGCACAGCCTCAATCAGAATCCAGGCTTAATACCTTCCTTGGAGGTAAATGGAAGTCTTGTGAGTCATCTGTAAGGGGCAGGATAGCATTACAAAGTTGATATTTTCTAACCTTGCATTGGAGTAAATGTGACTTTTTAATACTGCCTGCTCGCAGGGTTCCAAGTATACCCAGGAAACAGACACTGTTTCCTTACTTTCAAGAAAAGAGTTGTTTTTTGAAACACAGTTGATTTCACCAACCTTACTTACACTTACCTGAGCACCACATCTAGTAAGTGCCTGCAGATGTAGTTGTTACTAAATATCCAAAATGTACTTGGTTTCTGATTCCAG
Seq C2 exon
ATAAATGAACTACAGAAGAAGATAAAAGACAGGACCCAGAAGATGATGGCTCTTGTTGCAGAGTTATCCATGAAGCAAGCACTTGCCATTAAGCTCCAGCAGGAAATGAGAGACAGAGAAGAGTTTTTGATGATTGTTTCATCAAGGATAGATCAAGGCCTTCCTCCTCCTAAAGAGACAGAGATTGAATGGTTGAAGGTTTTACGCAATGAGAAGATGCACAAAGAAGCAGCAGAGGCCAGAGCTAGA
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000008309:ENSGALT00000013526:17
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.022 A=NA C2=0.157
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:
GAGGAGAAGCTGCTGGAGACA
R:
CCTCTGCTGCTTCTTTGTGCA
Band lengths:
352-1796
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]