GgaINT0063396 @ galGal4
Intron Retention
Gene
ENSGALG00000027785 | CCBE1
Description
collagen and calcium binding EGF domains 1 [Source:HGNC Symbol;Acc:HGNC:29426]
Coordinates
chrZ:9157781-9163877:-
Coord C1 exon
chrZ:9163842-9163877
Coord A exon
chrZ:9162753-9163841
Coord C2 exon
chrZ:9157781-9162752
Length
1089 bp
Sequences
Splice sites
5' ss Seq
CCTGTAAGT
5' ss Score
7.52
3' ss Seq
ACCATGCCTTGTGACTGCAGGGC
3' ss Score
6.61
Exon sequences
Seq C1 exon
GGGGAGCGAGGTGCACCAGGACCGAAAGGGATACCT
Seq A exon
GTAAGTATCACTCACAGCAAGCGATATTGTTTCTATTCTCTACAGCAACGTTTCTACAGCAAAGATATATTGGCTATCAGCAGACCAGCCAAAAGGAAGATAAATTTCTCCTTTGTCAAAATTAGAGTGAATTACACTTTACATGAAGAAAAAAAGTTATTGGAAAGAAAGTAATTTCCATTTTTCTTCCAAGCCTGTTGCCTACATACCTCCGACTTCACTGGATGCTACACTGAAGGCAGTAAGCAGTGGGACATGTTAGCTGGCAAAGGCATGAGAATACATGCAGAGTGCTAGTTAGCACAGTTCAGCCAACAATCATAGAAATGTAAGCTCAGAAACATTTTAAAATCTGCCTCTCATCTCTCTCTGGAATACGGCAAGCTGTAGACATTGAGCAAATCATCAAGAGAAGGATGGGGTGTATATAATCTGTTTTTAAGTGAAACTGATTAAGATGCTGTTTGTCATGGTCTTTTGATGAAATGGATTTTTAGGAGTGTGCAGCAGAGCATCCTCAGTACTGAGCAGTGTAGTCTACTACATGAAGTCAGCTAAAAAGAAACAATGATATTCTGAAATTAGATAGAAACAGGTAGATACTCTCTACATCTTAATTACCAGTGAACATAAGTGCTAGACACCAGTGGGGTTAATCTACAGAAAACTATACAAAGATCAGCATTCCCCAAAGATTTTTAAAACAAATATTACCAATTATTAATTAGTTATTCTATCAGTTTAATAAGAATATGAGGAACCAATATTTCTACCCTCTTTTCCCACAAGGTGTTGAGGTACACTTTAGAGGCAGATTCATCAAAGGAATTGTTTTATAACAAAGAGCTGAGAATCTTGTCAATACAGGCTCTGTCTGAAAAACAAAACAAAACAAACAAAACAAGCAAACAAACAAAAAACAACTTTGCCTTTTGAAAACTGTTTCCTGAGCAGGTGGATTCAAAAAGAGATGCTTAATTTCTGTCAGTAGATATGAAGCAGTATTTTAGTGAATTACCCCTGCAAGGATAATTATTATCTACCCATTTGAAAACCTAAATACGATATGACCATGCCTTGTGACTGCAG
Seq C2 exon
GGCCCACCAGGTTCGTTTGACTTCCTATTGCTGATGATGGCAGACATCAGAAATGACATCGCAGAACTGCAGGAGAGAGTGTTTGGACGGAGGACTCATTCATCAACAGAGGAGTTTCCATTACCTCAGGAATTTACAAACTATCATGACACGGTAGATTTTGGATCTGGAGAGGACTACAAACCACGCGCAGCACCCAGAGACTCCAGGATACAGAAGGCAGCCCATCCTTAGCTATGCCTACTGAAAAATAGAGCCCTTCTAGAGTTCTTTGTTATAAAAATGCACTGACAATGTAAAATATATAGAGATTATTTCCTATCTTTCTCTTTGCTTTTCCCTAACCATGCTGCCTGTACTGTAGCTTTCCCAGTTCATGATGGCCTCCTCGCAGTAATTCTATACCTTCAAGCCTGCACTGTGCATTGTATGTAGTTTAACAGGAAAACCTTCTTAATGTATAGGGCTAGCATGAATCAGGCAAGAGCTAGATAATGGGGCAGACAACAGCATCTCATCTGCCTACCTGTGGTTCTGTGTCCAAATGACCCAGTACCTAAATTTTGTGAGGGGTAGAGAGGTGAGAGAGGTAGCTGAACATCATCCCCAAAAGACATCAGTAATGAAAGCCTAGGTTCACATTTACTTTATACATGTAAATGAATTATTCCACTAAACACAAGTCTCCAGCTAGTGTCCCCAAGCTTAGGAGAGTGTGAAAAGTGGATCTCTGTTTCACAGCAGAGGCCAGTTCAATGTGAGGAGTCTCCTTCTGTTATGCTTCACCACGACAGAAAAAGAAAATATGATGAAGCAGTGATGCTTGTTGATCAAGAAATTATGTGGCTTGCTGTTAATAGAGAATTGTACAAAGACAGTCAAGAAGACGTCTTAGTCCTAAACTAACAATTCTTTTCCCTTACCATTCTTTCACTGCTCAGTGTGAAGCAGAGTTCTCTTTCTCAGCGGGGTCATACTGGATACATTTTCACACAGATGAGCAAGAGAACAGGGATAAAGCAGGAAAAGCAAGCATATGTCAATCAAGTTGGCTTATTGGCAAGCACAAATATTTCAACCTTGCAGAAAGTCAAGATTCTGACCTCCTGCAGGTGCTTTGTCTTCCTTGATGAAATGCTAACAATTTTACTTGATCCAAGTAAAACTGAGACCAGAGAGAGTCCTCGTTTGCAAAGAGCTTCCATCTGTTTTGCTCCTCTTACTGCATGCGAGCAACCTAAATGGCACTCACAGAACTGGAACACAAGAGTTGCAGTGTATTTGGCTGGGTATATGAGGAGTATGGGTAGGTGCAGGAGTGCACATGACAAAACATTTCACGTGATAGCTAAGGTGAGGTACTGCACATGGTATCCTGTATTTGTGAAGAGGGATGAAAGGGAGTGCCTTTTTTTTACACTGGAAAATGGGATGCACAAGTTAGATCATACCTCATGGATGATGTATGTTAACTTTTTAATGGGGATTTTCTCAGCTGCTGAGGACTTTGCCATGCTTAGAAGATAAAGGAGTGTATTAAGCACCAAACTTCAATGTTGTATCTGTGTAGCTGCTACTTCTACAAGATGTTTAGTGCTGGGTCCTGTCCACATCACAAATGCAAAGAAAAAATTATTTTGCCATGTTTTCCATGGCTTGCAAGTTCTAGTAGAATAAATACTGGTAAAAACATAAGGAGGTCCTTTTCAGATAATCTGTAAAGTTTTGGATCCCCTTCCATATTCTCTAGGTCAAAAGATAGTTGGTGTAATCCCTACACCACCAGAACAGGTCATGTTGTATAAACAGCTGGCTGTCTAGACCTTCCATATCTTTTGTATGTTATCTTAAGAGGATTTTCTTCATTCCTGTAATTGTTTCACAACTTTTCAGTATCAGTACACCACAAGCAAGGGCATTAGGTTTAAGAACATTAATGTTCTTTATTCCTCTTCACACTATATGCGTATCAGTATTTACACAGCAATGAATAAGTCACTGGTATAGCTAAGGAAAAATGACTCACTCTCTGGTCTTTGGGCTTCTCCTCTGAAAGGACCTCACCCAGCAGCTACAGATCCAAGTAATCTTATGAAGGAGGTAATGGGGATATCAGTGAGACTTGAGGAAGGAACTTCTGGCCAAAGGAAGGGTGTTCTTACATACATCAGATTGAAAGAAACCTCTAAGGCAGCATTAACTGAGGCATGTATTATTTTCTAAATTTCAAAGAGGCAACTAGGTATAAATTATGTAGTTCATGAATACGCAATAAGTACAATTGTTAGATGTCCAATTATGTATTTGTAACTTGCAAATTATGTAACTTTTGCATATGTTCTCCACTACCGCCCATCACCTGCTGGACCAGGTTGATTTCCACTACAGAATTAGAAGCTGCAATTGTTTGAACCACCAGATACTAACAGTGAATTAAATGAGTTGCTTCCTCCATACTGACTAAGTTCTATTGCCCACTGCCCACAAGAAGGTGTGTTCTAAAAAAAAAAAAGAAGGCACTTATTTGAGTTCTAAGCTCTGCTTTTCTGAATATAGACGAATACGAGTTCCTACAGTCTGACAACTGAATTCAGGGGAATGCAGCAATTGCCCTGCTTTGCATAAGTATTTAGGGAAGGGAAATTCTGATACAGCACCAGAAAAGTATGTGAAATACATTCCTTGTTGTAAGTGCAAGAAGCTGTCCTACAGACTTGAGAACATAAAATAGGGCACATTTTTACATGCCCTTCTGAATGCCTTTCTCAATAACTTCTCTTTCTATAGTCCACATCATGTTTTTTTTCCCACAGTTCAGAGCTGTTTCTGTCCAGCATACATGCTTCCTCCATAAAAATGGTGAAGGGAAAAACAACTTGGGTTTGTCCTTGTGCCTCACCCTCCTTTCCACAGACTCTTTGCCCCAAAGTGCTGTTGGCTGAACAGCAGCAGGGAGAAGATGCTGTGGTAAGGACACGTTCACTCCATAGGACAGAGGAATGCCTATAGCAGGGAGAGTTCCTCTGAGCAAAGCTGGCTGGGAAGGTCCAGCCTTGTGTCTGAGACCTCTGTGTACACCTTTATTATTTTATTTCTCATTAATTGTATGATAGCTTTCATAACACATTGTATCAGAACCATTTCACTACAGTTTCTAGAGAAACACATGCAGAAGCTCACAAAAATGAAGCTTTCTTAAGCATATTCAAAGTTTTATACACACAGATCAGAGGAGTCATCTCCAGTTTTAAGCAGTTACCAGAGAGAGAGAAGAAAGTCATTAGCTTATAAATTATTTATTTCTCTACAGCTCCAAAAGTAATAGCCCAAGAAGAATGCAGTAACATCTATACTTATGTCCAGTTTCATTACTAGGCTCACGCACATGACAACTTTGTTTCGTATAAATACTATGTATAATTTTATTAGAAAGAAATATTATTTTGATGTTAAGACATCAAGTTACAAGCAGAAGGATAATAAAGAGTTTGTTATTTTATTAATATTGGAAATATATTTAATGGAAACATTTACAAGAGTGTGTAGTGATGGGGAAATACTGATTGTTAAAAAGCTTAACAAAAACATAAAGCTTCCAGGGACATATGGGATTAGTCTTCCTTGCAAAACTAGAATACTGACACATAACAATTCTTACATGGTCAGGTTAAACCAGGAAAAGGAGATGAAAATTGATTGTGAACAGAATTATGACAATCCCTGGAGTTATTTTTGGTACCACAGTTTAAATAACATTCTTCCCAGAAGTATTTCAGAGTTAATGTTAAGCCCCAGAGAAGCAACAAAGGATGGGGTCCAAGAATTTGTTAATTTCACTGAAAATCAATATGTTTGTTCCTATTACACATTCCAGTAACTATACTGTTCACTTTATTTATATATAAAATACTAAAATGTGTATAAAATGATTGTGATTTTATGATGTATTCGTAACAACAAAGATATTTTTTCTTACACTGTTGGTAGTTGCTTCTGTTCCATGTACTTTTGCTTAAAGCACTGATTGGAAGAAACAAGGAGGACACCTCCTGACGCTGCCTTTTAGCATTCTGCTTGGAACTAGGCAATACGCACAGCAACGAGCACAGCTATGGGGACATGGCGTGCTGTGCTTGTGACAGTGAGGCACATACCCACCTCGGTACTGCAATGGCCTCATGAGCACTGGTCTTGGTGGTCTTAGCCATGCTGCTGGTACAAACAGCTTATAGCCACAGAATCATTAAGACCTCTTAAGATCTTCTAATCCAGCCAACCCCCACCATGCCCACTCACCACATCCCTCTTTGCCACATCTCCACAGTTCCTGAACACTTCTGGGGATGGTGACTCCATCACCACCCTGGTCAGCCTGTGCCACTGCATCACCACTCTTTTGGAGAAGAAATTTTTCCTAAAACCCGGCATGAACATCATGCAACTTGTGGACATTTCCTCTTGTCCTGTCACTGGTACCTGGGAGAAGAGGCCAGCCCTCACCTCACCACAATCTCCTTTCAGGAAGTTGTAGAGAGCAATAAGGTCTCCCCTGAACCTCCTCCAAACTGAACAGTCCCAGTTCCCACAGCCACTGCCCATAAGCCCTGTGCTGCAGACCCCTCACAGCTTCGCTGCCCCTCTCTGGACACGATCCAGCGCCTCAATGTCTTCCTGGCAGTGAGGGGCTTCAGCACAGCCAGGGGAGGCGGTGCCCACCACCGGTACTGGGGAGGAACATGGAAGGCGGATAAGGCAGAGGCAGGCCCGTGCCCACACTTCGCACTTCCCTGAGAACTCTCAGGCCCATGTCCACCCTGTGAGGGCAGGGCATCACCTCCAGGACATCACAGCCGCCGCGAGCAGCGAGCAGAGCCGCTCTCCTCCTTTACCCCCAGAACCTACCCTACCGGCCCGATGCGCCCCGACGTGCACTATCACTGCTCTACTTCCGCGATGCAAAATGGCGGCGTGG
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000027785:ENSGALT00000043658:10
Average complexity
IR
Mappability confidence:
NA
Protein Impact
Alternative protein isoforms
No structure available
Features
Disorder rate (Iupred):
C1=1.000 A=NA C2=0.987
Domain overlap (PFAM):
C1:
PF0139113=Collagen=FE(28.2=100)
A:
NA
C2:
PF0139113=Collagen=PD(12.8=6.4)
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:
GTGCACCAGGACCGAAAG
R:
GGAAAAGCAAAGAGAAAGATAGGAA
Band lengths:
366-1455
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]