GgaINT0063393 @ galGal4
Intron Retention
Gene
ENSGALG00000027785 | CCBE1
Description
collagen and calcium binding EGF domains 1 [Source:HGNC Symbol;Acc:HGNC:29426]
Coordinates
chrZ:9164579-9166867:-
Coord C1 exon
chrZ:9166747-9166867
Coord A exon
chrZ:9164719-9166746
Coord C2 exon
chrZ:9164579-9164718
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
ENSGALG00000027785:ENSGALT00000043658:7
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.748 A=NA C2=0.744
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]