GgaINT0109134 @ galGal3
Intron Retention
Gene
ENSGALG00000008309 | CCDC146
Description
NA
Coordinates
chr1:13710735-13712480:-
Coord C1 exon
chr1:13712407-13712480
Coord A exon
chr1:13710963-13712406
Coord C2 exon
chr1:13710735-13710962
Length
1444 bp
Sequences
Splice sites
5' ss Seq
AATGTATGC
5' ss Score
3.91
3' ss Seq
TTGTTAACACGTATCCACAGCGA
3' ss Score
6.15
Exon sequences
Seq C1 exon
GATGAATTAGTTAAGATCCTTGGTGTTCCAGTGCAACTTAAAAAAGAAGCTGAGAAGATAAATCAGAAAAAAAT
Seq A exon
GTATGCTTTTAATAAATAAAATAAATATACTTATCTATGTATTCCTTACTTTCATCCATTTGTTACAGAGACTAATTAGAGTACAGCTGTTGATTAAAATTAGGATCATAATTTAAAACAGCATTGATAACCCACTCAAAATCCATGCACCCTTCTAACAGATGTTGTGTATGCGGTGAAATACTTTCCATTTAAACACTTTCCTCTATGGGAAGATGTCCCTGCCCATGTCGGGTTGGTGGAACAAGATAATGTTTAAGGTCTATCCAACCCAAACTATTCTATATTTCTATATAATTTAAGCACAATAAAGAAAAATAGGGAACAAAACTTAGCTGAAAATGATTTAACCATCTTACTGAGCTACAGTGATACATATTGGATCTGCTTAGTAGATTCCCAATGGTTAACAACGTTAAGCTGTTACGTACACTGCATAACGTAGCAATTAGCCTGTTCTGCATGTTCTGCATGTTCTACATCTCAGTGAGTGCACATAAGTTTGTTTACATTGGCCTCAGTGAAACTGCAGCAGTTTTCACACAGGTGGAGGTCTGACCCAAAGGAAACCAGCATTTTCCCTCCGTGCTTGCATAGAGGTTTGTCAGGCAGAGGTGGTTTACTATAAGCTCCCAATGTGAACTCTGTCAAATATTTCAGCTAGGAAAGCAAGCCAGCCAGCAGCCTTTTCTCTGTTTCTGTGGCTGTTTTTTCCTCCATCAGAGCATGATGTGCTGCTTTCTGCATGTGTAAAGTCTATCTGGTACCTGCAGTATCAGCCCGGTCTCTCCCAGCTGCTGGAAGCCAAGTGCCCATCTGGCTGAACAGTACACATATGCCCTGTTAGCATACAGGGATACACAGAGGGTTTTGTGTTGCCTGACTGCAGTCCCTGTCAGAAATAAAGCTATTGGTTAACTACGTTAAATTTCTCAGTTTTAAAATTTAAGTGATTGTTTTCTTTTATTTTCTCCTCAGTACTCTGCTTAATGCTTAATGTAACTCTGCTATTGTAGATACAAGAAGTTTTCCCTATTGTGTTACAGAAAAGCAATTTTAAAGAGTGCACTGGGTAGATTATTAATGGAGTATTTAAATGAGTTCCTTCTACCTGAGACATCACAGAACAAACTCAGAGCTTCCAGCCTTGCAATGACAGCTAGATGCATCACAATCCTGTATCCACTGATGCTGACAGCTCCGTTACCATTTTTTAACAGTGTTCTGATGCTAAGATCTCCATGATCAGCTGTAGTTTGATGCACAACTGTATTGGAATGCGAAGATTTTCACTGTCTGTAGCTTGCTATTGTACATGCTGAGTAGATAGCTGTGGCTTTGAAATAATTTTGTGCTCTCATGAACACTGACAACATATATTTTGTCATTTAAATACACACATAGCAATGTCAACCTCTACTCTTTTGTTAACACGTATCCACAG
Seq C2 exon
CGATGCAGAGAAGAAGAATGAAGACCTTAATAACCAAATGCAGGAGTTAAACAGTACCCTGAACGACATCGACAAAGGGACAGAAAAGATTTTGCAAGAAAGAGAAGATGTAATGAAGGAACTGGATGGAAAACGAGCTTTGCTGGAAAGCAAAGAACAAGAATGTGCTGCTTTGGCAAGACTGCTAGAAATTGGCAGAGAAAAGCAACTGGCGATCCTGGTAGAGAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000008309:ENSGALT00000013526:7
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.160 A=NA C2=0.390
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
Human
(hg38)
No conservation detected
Rat
(rn6)
No conservation detected
Zebrafish
(danRer10)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
GATGAATTAGTTAAGATCCTTGGTGT
R:
CTCTCTACCAGGATCGCCAGT
Band lengths:
302-1746
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]