DreINT0075672 @ danRer10
Intron Retention
Gene
ENSDARG00000020642 | gtdc1
Description
glycosyltransferase-like domain containing 1 [Source:ZFIN;Acc:ZDB-GENE-050417-8]
Coordinates
chr9:26057056-26060367:+
Coord C1 exon
chr9:26057056-26057223
Coord A exon
chr9:26057224-26060193
Coord C2 exon
chr9:26060194-26060367
Length
2970 bp
Sequences
Splice sites
5' ss Seq
ATGGTAACA
5' ss Score
4.87
3' ss Seq
AGGACTTTTTTTTCCCACAGCCT
3' ss Score
8.25
Exon sequences
Seq C1 exon
GGTTTTGTTCACCAGCTCCGTTCTCAATCTAGCCGAGCTTGTAGCTCTTCGTCCTGATCTTGGCCATCTTAAGAAGGTTCTCTACTTCCATGAGAACCAGCTGGTCTATCCAGTCCGCAAAAGCCAAGAAAGAGATTTCCAATATGGCTACAACCAGATCCTCTCATG
Seq A exon
GTAACAGCATATCTTCTTTACCTGTGAAAGATGAACATATGTTAGTGTAACCAGATGTATTGAAAGTGCTATATATTACACAGTTGTTAGTTAGTCATTTAAATTTCACCTTTCTACTCAAAAGTAGAATAGAAAAAGAACATAATTTTTATGCTGATTATTTTTGCAACTCCCGATTTTACATGTAATTGTAATAGTTTTCTTATCTTCCTTTCTTATCTTCTTTCTTTTCTGACCACACTCTTTTGTTAATAAAAATAACTGAATAATATCACAGCAGTTTGCAAATATGCAGCAATATACATTGAGAAATTTACTAAATTCTTAATTATAAAAAGGGGTGTACTCCTTTATGGTTACTGTACTTATAATGTCAGTAAAATGGCAGTAGTTGAACTCGAAGCATTTGACCCAATATTACATTAAAATGTTGAGTGGATCTCAATCACAAAACAATGCATATGCACACATTGTTGGTCACACTTTATTTTGATGGTCTGTTTGTTGAATTTAAGTTACATTGCATCTACATACCAGCTAATTCTCATTAGATTATAAGTAGACTTTTAGGTTAGGGTTAGAGTTAGGGTTGGGGTGGGTGTAAGTTGACATGTACTTGCAAAGTTTCTAATAGTCAGTTATGAATAAATCATAGATAATCAAACAAGTTTGCACTGAAATTATACTACAGTAAATATACGAATAAGTAAAGAGCAACTTACCACGCATACACAATAACCATATAGGTCCAAGGCCTTATAAACATTTATATAAAGAAGCCTACATATAATAAATAAAATTATAGACATTTAAAATCAATAATTTAGTGTAATTAGAGGCCCAATTTTTATGTACAAGTTCAAGAACAACTTGTGTGAAAACTTATGTGGGGAAAACATGCAACTATTAGTGAATGAGACTCAATATAAAACATACAAAAACTGACTATTTTTTGTTATTTAAAGTAAGCTTGAAATCCTTAAACATACAAAAATCTAAAGAAAATGAAATGTATAAAATAGTTTTTCTCATAAAGTTGAACCTTCCCAAGTTTTCCCCAAGTTCACCTTAATGTATGGCAATATGTCAGTACAGTCTGTGCATAGCAAGCACCATTTCTGTGCCAGACTGGATTTTAATTCACAAGAGAGACAGTGTGTCTGAGACAGAATACTTTATCATGCGCGTTACTTGGCATGATGTGATTGGTTAATTATGGGATCGTATAATGGTGCTGTAATTCTTAAGAACTCAATGTTTTAAAGCCTAATGTCATAATCAATCTTGATGCTTGAAAGAAAGGGTTTTAAGAGCTCTAATTGGAATACATTGTGATTGTTGTCTGTCAGAGTATCATGTCAATAATTCAAAGGCCCTTTGCTTGCTCAACTTTATTAACGTGGCAGAACAGTGACACAAAAAAGAACCCGGCTCTTCTAATTCACTCTCTAATTGAGTGCAGTGCAGTGATTGATTCTGGCAATTGGGGTTAATCAGCGTGCCATTTAAAAAACATAGTGTGTTTGTGTATGCGGATTCTAATCAACATGTATTAGATATTTAAAGTGACTAAATACTGTTGACGTCTGCAAAGCAAGTTATTGCATGTACAAGTTTGCTTTTCAAAACATACGCTAATAATGAATTAAGCAGCATTGTTGTGATGGTTTGGTTTTTTGTGGCTTTGTTTGTCATTAACAATAATGCTTAATGGAAACACCAAGATGCGCATACATTTTAAAACTGTGCATAAAAATATGCTCACAATTGAGTATAGGATTAACTTTTATTTAATAACGAACAATTTGTATAAAACAACAATGGAAACAACTAAATAAAATTCAACTTGCATCAACAAAATCATGTGATTTTGCTTTAACAGATCTTTTGATGATAAAAATAGACAGGATGGGACAGCATTAAAGAACAAAACACCAGACCGGCCACATTGTTAAAATATCTGAAATGTTGTTTTGATCATTCTGAAATCCCTTAGCCAAAGTCTGTCATCAAAGTGTTTTGGTATTATTACCTCAACTCCCAAAGAGCAGTCTTGCGCCTCCAAAAGCCAACATGTTCATCCAGTTTCGTTTTCTAAGACTCTAGTAATTTATTATATAATAAAAAAAAGGCCCACAATGGCTTTTCCAGCTAATCCCAGTTTTCTTTTTGATATTTGCTGCCAGTTTCTTAGGCAGTGCCTAATTTGTTCTGTTTGACTCACTGAATGAAAACTCATTGAATGTTTTATATTTCAATATTTCTGTTTAGCGCAAAAATCTTATTCACATCTTTGGATTGAAGCATTCATTCATTTTTCTGTAGCTTAGTCCCTTATTTATCAGGAGTCGCCACAGAGGAATGAACCGCCAAATATTCCAGCATTTCTTTTTTTAATGCTGTGTATACCCTTCCAGCCACAACCCAGTACTAGAAAACACTCGTACTCTCTCAAATTCACACACTCATACACTATGGCCAATTTAGTGTATCAATTTCACTTAATGACCTTATTTTTCAATGCAGAAGTGCACAAATTTTTTCGATTGTTTTACAACTGCTCATTGAGTTGCCTATAGGAGAAATGACTAGAAATAATAAATGCCAGAAAACGGTCAAACTACTTGCTCTACAAACAAGTGTGTTCATGACTACAGACAAAGCAGAATAATATAATAAGAAAAAATCAGTTTGCAACATCAAGCAGCATAGCATGCTGTTTTTAATGTCTAAAAATTAATAGAAGTTAATGAAACTTTATATGTAAAGAATAAGGTCAATACCGCATGTCTTTGGACTGTAGGGGAAACTGGAGCACCTGGTGGAAACCTATGCAAACATTGGGAGAACATGCAAACTCCACACAGAAATGCCAACTGACCTAACTGGGACTCGAACCAGCGACCTTTTGCAACAGTGCTAACCAATTTTTCTTCTTTGATCATCTAAAAGGACTTTTTTTTCCCACAG
Seq C2 exon
CCTGGTTGCGGATGTGGTGGTGTTCAACTCCTCGTTTAACATGGAATCCTTTCTCTCGTCCATCTCCACCTTCATGAAGACCATGCCTGACCATCGGCCCAAAGATCTGGAGCGGCTCATCCGTCCCAAGTGTCACGTCCTCCACTTCCCCATTCGCTTTCCCGATGTCACAAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSDARG00000020642:ENSDART00000024572:3
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.000 A=NA C2=0.017
Domain overlap (PFAM):
C1:
PF120383=DUF3524=FE(33.5=100)
A:
NA
C2:
PF120383=DUF3524=PD(30.5=86.4)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Associated events
Conservation
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]