GgaINT0109145 @ galGal3
Intron Retention
Gene
ENSGALG00000008309 | CCDC146
Description
NA
Coordinates
chr1:13690261-13691701:-
Coord C1 exon
chr1:13691453-13691701
Coord A exon
chr1:13690465-13691452
Coord C2 exon
chr1:13690261-13690464
Length
988 bp
Sequences
Splice sites
5' ss Seq
AGAGTAAGT
5' ss Score
9.35
3' ss Seq
ATAATGCATTTCTTTTACAGCAG
3' ss Score
7.61
Exon sequences
Seq C1 exon
ATAAATGAACTACAGAAGAAGATAAAAGACAGGACCCAGAAGATGATGGCTCTTGTTGCAGAGTTATCCATGAAGCAAGCACTTGCCATTAAGCTCCAGCAGGAAATGAGAGACAGAGAAGAGTTTTTGATGATTGTTTCATCAAGGATAGATCAAGGCCTTCCTCCTCCTAAAGAGACAGAGATTGAATGGTTGAAGGTTTTACGCAATGAGAAGATGCACAAAGAAGCAGCAGAGGCCAGAGCTAGA
Seq A exon
GTAAGTTTTTTTGCTCTGTGTTACACTTTGTCTCCTCCTTTTTTTTTACTGCTCTAGCTCGTCCTTCTGAAAGAGCAGCACTAACTCACTGCACAGCTGCTCACTGACAACCATGGGGCTCCAGGAGGTGGTGGAGATGATGGGACAGACAGTGGCAACTACAAAACCAGCACACTGTGGGTTTCTGGAGTTACAAACTGCAGTATGGCACACTGCTCAGATAGAACAGGTCATCAAACCTTAAGTAGAGGATATGTTACATTCAAACTACTTTAATAATCAAAGGTAGATCTTGCTTCATGTGAAAGTAGATCTTGCTTTATGTGACAGTGTTCTGAGTTAACTGCTAAGATAGTCAAATACAACTGAGATGTGTATAATTGAGGGAACACCTGCAGGTAGGAAACTGACTTTGTTATATGATTCCTTCTCCAAAGAAATCTGAAATGAACACAAAGCTGGGAGAGGAACACATAGTGCATACATTTAAAGAGCCTGATGGCACAAGGAACTGTTGCAGTTAAACTGGTTTAGAATAAGAAACCTTTGTCATTGACTCTTTTCATATTATGACCCAGTTTCCTTTCAGTACAGTGACAGTATTCAAGAATAGCTGCAGTCAGCATAAATAGAAACTGGGCTTTGAAGCATCATAACTTATCTTGTTCCTGAGATGGTCTGTGCACACTTATTGCGATTACTGCAAGTTCATCTAATTTTCTTTCTCAACAACAACAACAACAAAACATTACGGGCTCAAACTATACAGTATTTAAAAGGACAAACTCATACCTACATGGTCAATAAATCACGCTTTCCTTTCAATGAACAGTTGAATACCCATCTTTGTTTTCTGGTTTCTTGATTTGCTAAGAATTAGACTAATGTTATTTCCTCACTGGGCATCCTCTACTTTGGCTCAGAAGAGTACTGACTGCAGTCTTCAAACACGTAGGCACTATGTGCTCATAATGCATTTCTTTTACAG
Seq C2 exon
CAGGCTGCAGAAGAGGAACAAGCTGCAGTGCCTGGCCACGTCCTCACAACGGCTGAACCACGGCCAACTGCTTATGTCCCAGATGATGCATACAGCCTGCCAGTGCCACGGCCCTATGGTGCTTTGGCTCCTTTCAAGCCAAGCGAACCTGGTTCAAATATAAGACATTTCAGAAAACCAATTATAAAGCCAATTGAAATCTGA
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000008309:ENSGALT00000013526:18
Average complexity
IR
Mappability confidence:
NA
Protein Impact
Alternative protein isoforms
No structure available
Features
Disorder rate (Iupred):
C1=0.157 A=NA C2=0.522
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:
AGGACCCAGAAGATGATGGCT
R:
GCTTGAAAGGAGCCAAAGCAC
Band lengths:
358-1346
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]