DreINT0034747 @ danRer10
Intron Retention
Gene
ENSDARG00000004270 | atl3
Description
atlastin 3 [Source:ZFIN;Acc:ZDB-GENE-041010-109]
Coordinates
chr14:30436350-30440377:+
Coord C1 exon
chr14:30436350-30436484
Coord A exon
chr14:30436485-30440272
Coord C2 exon
chr14:30440273-30440377
Length
3788 bp
Sequences
Splice sites
5' ss Seq
GAGGTAACA
5' ss Score
8.1
3' ss Seq
TTTGTTCTTCTTTTTTCTAGGTT
3' ss Score
11.8
Exon sequences
Seq C1 exon
CCTGGTCAGGACTGGCTTGGGCAGGACAATGATCCGCTGACCGGTTTCTCCTGGAGAGGAGGATCAGAACCAGAGACCACTGGCATCCAGCTATGGAGTGAAGTTTTTGTTGTGCGAAAGAAGGATGGAAGTGAG
Seq A exon
GTAACAAACACCCACCAGAAGGCAGCTTAATAAATCACGTGCTCTTACTCATAATTGGGTTAAAGGTTTTACTGCCAGAAATGTTAAGTATTTTTCAGCTTTTACTCCACTCTGAACTGTACATATAGTACGGAAGGTGTTCCGAACAAGAAGTCTTAAAAGGGATAGTTCACCCCAAAATATTTCCTCTATAATTGCTCACATTGTGTATAAATTATTGCTCACATTGCAAGTGGATATACACTTTAATGAATATCTTTCTTTTGTTGAAAACAAAACAAGATAGTCTGAAAGATTTTTGAAAACAACCATCGACTATTACAGTAGGAACAAAAAATATTGGTGGAAACCAGTTCTTCATTATATCTTCCTTTAGTGTTCAACAGAAGAAACTCAAACAGGTTTAAAACAAGTGGAGAGCAAGTAAATGACTTAAATTTAAATCTTTTAAATTTAAAGTGACGCATGAAATTTGATTGCATCAAGATGCACAGTTAGACTCTGCTGTAGAATTTTTAAGGAAGTGATATAAAGTCTGATGTTTACATGCTTTAATATATATCTTGATGTGTCATTATGCTGTCGTGTACAAATAAACAGACACCATCTGATGTGAATTAAATGGTCCTATGGCAAATTATATGTTTTTTTATGTTTATGCAAGTCATTTCACTCAGTGGCCATCTTTGAAACGCCTCTTGGGCAGTATCCTCAGGCATTCTGTCTGAATGGGGAAATTTTCCAAAACTGTTTGCCAAGCTTAGGATAACATAAAATATTTGGAATCACCAATAAAATTAAACAACAACATCTCATAAGTTTCATTTCTAAACAGCTGAATCAAACAAAATATTTTCTGGTTGCCAAAGCTAATGCGCTTGCTCACTTGAAAGAAACAAGATCATGACACTAACTATGTTTATGGCCGTTTTACACATTATCATCCTCTGGATAATGCTTTGTCTGATAGTGCTGGTCTTCTGAAGTAATTCACAACTTGATTGCGAATCCCCTCCAGGAATGACAGCGATTCTTTTGTTTACAAGTTTGGGGGGCTTTTGAGTAGTTGCTATCATGGGATGTGCATTTGACAGGACGGACTGTACCTCATGTTCCATTTATACAGATTACAAAACCAAAAAACTTTTGTTTGTTATTTCCGTAGGGCACTCGGTTATTTCTTATGTCTGTGAGGCAAATATTCGCTCACAGTGTTCACTTCCAGTGTGTTCGTTGACCACCAAACTGTTGTATAAAGCACACGTCTGGTCTGAGCTTTTCCCCTGGAGAAACATTAGTCTATATCGATTGATGATTGGCTCCTGTACTAGTAGGCGGGGCTTCATTCACTAATTTCCCATTTACACTTTTCCCCTTTCAAAACTATATGAGAGACATGCCTTGTGTATTGTATAGTTTTTGGTTTAAGTTTTACGAAATCTGTCATTTAGTACTTTGATTATATTCTGTACAGTACTGAAAAAAGAGGCTAAAAATCTAAATGTGGTCTTGGGGAAGTGCTTGGCATACTTCAAAGCTCTCTTCCCAAAGAAGTAGTTCCTGTTCTTATCTTAATGAAGAGACCAAAATATTAATATGGTAATCAGAGCTTTGCTAACAAACCACACCAATGGGTAATTGGTGATTTAAAAAAATATCATAAATGTTAATAAACTATTAGAATTATTGTATTTTATCCATAACCCACAGAAATAAAAATAGTATTTAATAGTTACATAAAATAACAACATGCAAATAAAAAGCCATCAGCCTTTCAATTCTTTTTTTCATTGGATTGCAACCCCTGGAGTTAATATGCTAGATTAATGACACAGCAATATTGTTAGTTGCAGTAGATTTATTTTACGGCACAATGTTAAACTTTGACACCTTCACAGCACTCGCGTACAATAAAAACATGTGAGCCACAACTGAACATAGAGGACGATTTCCAAGTGGCTGTCTCTAAAATCAATTATGCTGTAAACATTGTGCTCAATATTAGGGCTGTGCGATTAATCGAAATCGAATTGCAATTTGAAACGTTGCGATTGGCTAATCGCAAGAGGCTGCGATATGAAATATATGTATAATTTAATTTCCACTACCCAGAGTAAAATGTGTGACTGCTGTCTGTGTACGACAGTATTACTAGCCAATTGAGTGAGCACACTTTTGATCTCCCAATCAGAATTGCAAAATGGCCATAATAAAAAGAAAAAGGAATGTGCAGACAAGTGGGAATATGAAATCTTCAGCTTCAGAAGCATTAATAGACTAATTATATATCAAAGAAAAACAGTAATATGGGAGTTTAGTCATTTAAAAAAATTTGTATTATGGGAATATTTTGGTTTTAAAGTCACAGACGTTAAACAAAAAAAAAACGGTCATTTGTAAGAGAATGTAATGTGTATTTATATAGCGCATTTATTGTGTATGGCCATACACCCAAAGCGCTTCACAATCATGAGAGGGGGAGGGGGGGTGGTCCACATCACCACTAGTGTGCAGCATCCACTTGGATGATGCGACGGCAGCCACAGGACAACGGCGCCAGTGCGCTCACCACACACCAGCTATTGGTGAAGTGGCGAGACAGCGATAGAGCCAATTCGATGGATGGAGATGATTGGGAGGCCATGATCGCAATGGCGATTGAGGGACTTTGGCCAGGAAACGGGGGTTACACCCCTACTCTTTTACGAGAAGTGCCATGGGATTTTAATTGACCACAGAGAGTCAGGACCTCGGTTTTACGTCTCATCCGAAAGACGGCGCCAACTGACAGTATAGTGTCCCCTTCACTTTTACTGGGTCATTAGGATTTACACAGACAACAGGTTGAGCGCCTCCTGCTGGCCTTTCTAACACCACTTCCAACAGCAACCTAGTTTTCCCATGTGGTCTTCCATCCAGGTACTGACCAGGCTCAGCCCTGCTCAGCTTCAGTGAGTAACCGGTCTTGGGCTGCAGGGTGATATGGCTGTGACTCTTTTTTTAAGACAATTTTTTTTCGCAGAATTGTTGCCTTGGCTTACAGATTATTGAGCTGAAGCTTGACTAAAAAATCAAATTGTAAAATCTGTGAAAAACATCTTAATTATATATTTTCTCCAAATCTCACAGCGCTTCACATCATTCTCATTAAGTGAGGTTAATATTAAATTAGGCATGAATAATGACTATAAAAATATATATAGTTGTTAGACTGTTGCACTTTTCTTGGGTTGTCAGTAAGCTTGTTTATATGCTGTAGTGCCTGTTGGTGTGTGTGCAATGTTTGTATGTTTATAACTACCTGCGAGCATATTAGGTGCCGTGAGTCACTGGAATTATTATTTTGGGGGTTGCAAGCTGAAAGATTTGGGAACCTCTGCTGTAAATCATTAAGTGAAAGTCCTGACACTAGAGGTCATGTGTGTTTGAGATCTATGGTGTAATTGAAGAATTGAATTTTGAATGAGGAACTAAAGGAGTAGAAGTCAGCTTCACTTCCCTAGAAATTTACCATGAATGTTGCATTATGAGCTTTTTACTGTCTGATATCTTATCTGGTAGTGCTTGTCGTGTAAGCAATCTGCACTTGTGCAAGTCCTGATTTCAGATTCATAGTTTCAGGTTTCTTAGGAAATTCTGTCATTTCCTCTCTGTAGTTTGCAATCTGTGATTCTGGCTTAACGTGTTTCAGGAATGATTCTCTATGTTTTACATCACTTCCAGTCACTTTCTCTCTTGTGATTTGAGAACTGCACTAAAGCAGAGCATTTTGTTCTTCTTTTTTCTAG
Seq C2 exon
GTTGCAGTGCTTTTAATGGACACGCAAGGAGCGTTTGATTCTCAGTCCACGGTGAAAGATTGTGCCACTATCTTTGCCCTCAGCACCATGACCAGTTCTGTCCAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSDARG00000004270:ENSDART00000023054:3
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.111 A=NA C2=0.000
Domain overlap (PFAM):
C1:
PF0226314=GBP=PD(45.4=95.7)
A:
NA
C2:
PF0226314=GBP=FE(12.5=100)
Other Inclusion Isoforms:
NA
Associated events
Conservation
Chicken
(galGal3)
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]