GgaINT0063393 @ galGal3
Intron Retention
Gene
ENSGALG00000002613 | CCBE1
Description
NA
Coordinates
chrZ:8646753-8649041:-
Coord C1 exon
chrZ:8648921-8649041
Coord A exon
chrZ:8646893-8648920
Coord C2 exon
chrZ:8646753-8646892
Length
2028 bp
Sequences
Splice sites
5' ss Seq
CAGGTAAGA
5' ss Score
10.77
3' ss Seq
ATAACCTTTGTCAATTGCAGGGG
3' ss Score
9.74
Exon sequences
Seq C1 exon
GTTTCTTTGCTACCAAATAATGCTGCTGATCTTAGCAAGCAAATCACTGGTGAAAAAGTGCTTGCATCTAATGCATATATCCCCGGCCCCCCAGGACAGCCTGGCCAACAAGGTCCTCCAG
Seq A exon
GTAAGACACAGACCAGAGGGGTGTGGGTGTGAATTAATACCATGAGAAAAAATAATAAGCCTCATTTTTCCAGTCTGATAGGACTTCATGTGTTATGTATTGTGATTGCTATGATTCTATTTTCATTTGTAATAAATTGAAAAACATGCTGTTTATTATTCAGTCATCCTCTGCCAACTGTCTAACAACAGTCCCTTGTATTTCCTAGTTTCCATGTATTTCTTCCCGTGCAAAGTTGGTTTTGTTCTGTATGTGTTAATTTGCTCCCTCTTCCTACAACATTTCACCTGCTTCACTTGTCATTCCCCATTTCTTAACTCTGTCTTAAGCACCCTGCATTACTTTTCAGAAATACCTACTATTTTAGGTTGTTAACAGAGCAGAAGATTTGCTTTCAGTTAGTGGGAATTTGTGCCAAATGTTTTATTTTTCCCCGACTGGTTTTGCAAGGGTTTATTTCTTGATTTTATGTTGTGCTCGGGATTCAAAGAAACCTGAAAAGTAAAACCACACTCTTACCTTCACTTTTGTAAGGTATAGGGTGAAACAATTAGAAAAGCAGAGTTCCAAATTCTCTAACTTAAGCCAGACATCCTGCGACCTGCAGTGATATTTAAAGTTTTGCTAACTGTTGAATGCAAATCTGATTTTCGGCTAGCAGTAAATGCAGGGAATTTTAGTACTGTTCTGAGTTTGTGGAATACTCTTATCAAGGACTAGCTGATATTCCTTACCAGGTTTGATTCCCTACATGCAGAACTGTCTTCCATTTATTCCCACTTTTGCAGTCTTGCTTTTTTTATTATTATTTTTTATTTTTATTTTTTGAGTTTTTATCTCATTTTCTTGGAGGATGAGTTTCTTTAGTCTTCACTATAACATAAATGCCAGGACAATGTGGTTAGAGATTCTACATCAGCCTCTGAAATGTATGGCACACTGTCTTGCAATCTCTCTATCGTAGGCTGGCTCTGCATGTCTTCCATCTGGTTCCCATCACTGAGCTGTCCAAGGTACTGTAGAATTCTCTCTTCATCCCCGCTGATCTTCTCCCCTGCTCTACCATTACCAACAGCACGGCCAAGAATTGAGCAACAGTCTGAGCTGTTCATCGCTGAACTTATTCCTTGTGAATGCCCTAGTTGTGAATATGCTGTTCTTACGAACCCTTTTTTCTCTCTACCTTTCGTTTCTTGGGTCTTTCACATCATTTCAGTATGCAGGAAAGTGCTTTCAGCTCTAATTACATACCACTTCTGCCAATGACACTTTAATGAATTTTTATTCAGTGCAAATGTTCTTTTAGGTGCCTTATTTTCTGTTTAGCTTTCCACAGTGTTCTCTTGATCTAAACCTCTACTTTGTTGCCCGGGTCCTCCTAAAAACTAACATATTCTGCTGAGCCAGCAGAAGCTGAAAAGGGTATAAAGTAAAATCCAAGAACAGAGCTTTTCTTGCCCTAATATCTTGGCTGCCATACTGTGAAAAAGAGATCTGCAAATCACTGCTGAAAAGGGTTTGCTTCTGTGCCAGTCATGTAGATGGCTTTGACCCAACGTTTCCATGAGTTTTCTGAGGCTTTCTTTTTATGAGATGATTCTGAGATGTGACTTGTTCTTTTCCCCTTTTCTTCGCTGTGTGAAAATGAGACTTTTCTGCTTTTCTTTCCATCCCTGGTCTGTGTCGCCAACCACTTGGCAGTAGCGATCGTTTTGTTTTCTGATTGTTTTTTGTTGTTGTTTGTTTGGGTTTTTGTTGGTTGGTTGGTTTTGTTGTTGTTGTTTGGCGTTTTTTGTTTTGTTTGTTTGTTGAATACACAGGATTTCACTGCTTTGTTAAGACTGCTTGCAGTTACTGTGACAAGGAGTGATGTTATCTAAAATGACTTCTGTGTTGGTTACATTGTGGATTTGGGTGTGTTAAGGTAACCAGTCAATTGGGTAGTTCAAAAAACAGCCCATCGCCACTGCATGTGCTGATGAAGTATGCTGAAGGCTTTCCCTGGCAGATAACCTTTGTCAATTGCAG
Seq C2 exon
GGGCACCAGGACCGAAAGGAAGTCAAGGAGTTCCTGGGTCACCTGGACCTCCTGGACAGCCAGGCCCCCGGGGATCAATGGGACCTATGGGCCCATCTCCAGATATATCCCACATTAAACAGGGCAGACGAGGCCCCGTG
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000002613:ENSGALT00000004114:6
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.951 A=NA C2=1.000
Domain overlap (PFAM):
C1:
PF0139113=Collagen=PU(28.6=34.1)
A:
NA
C2:
PF0139113=Collagen=PD(69.4=72.3),PF0139113=Collagen=PU(20.5=17.0)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Other assemblies
Conservation
Zebrafish
(danRer10)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
No suggested primer sequences
R:
No suggested primer sequences
Band lengths:
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]