GgaINT0119783 @ galGal4
Intron Retention
Gene
ENSGALG00000011406 | NTN4
Description
netrin 4 [Source:HGNC Symbol;Acc:HGNC:13658]
Coordinates
chr1:45473801-45475845:-
Coord C1 exon
chr1:45475777-45475845
Coord A exon
chr1:45473972-45475776
Coord C2 exon
chr1:45473801-45473971
Length
1805 bp
Sequences
Splice sites
5' ss Seq
ATGGTGAGT
5' ss Score
10.13
3' ss Seq
TTTAATTCATGTCTTCCCAGTGA
3' ss Score
6.61
Exon sequences
Seq C1 exon
GTAAATGCGAGTGTAAGGAGCAAGTTTTGGGCAACTCCAAGGTCTTCTGTGGGATGAAGTATACCTATG
Seq A exon
GTGAGTTGTGGAGGTGTATAAGGAGGTTCTACAGGAGTATAGTGCTGAGCAACCCTTTCTCTGCAGCTTGCCAGAGGGGAGCAGCACTCTGGAAGCTAACTGCAGTGTTCAGACACTGATGATGCTGTCACTGAATGGAGGATAATGAAGACCCCAGGCCTCTATGTCCCCATACACTTCTGCATGTTCTCAGCAATGGAGCGTGCCAGCCCTGCAAACTCTTGGACTACTTAGTCTGGGGACAGATCTTGTCCCCTCCAAAAGCATGTAGATATCTTGGTGCCTAGTCATGCTGGGTGAAGCATCTTGTTTATCTTGCTACCAAAGTGCACTTGTGCTGAAATCATGGGTATGCAAGAGCTGTAAGTGCCCTGAGAGGCTCTCTAGATCCAAGACAAAGTAAAAGGCACTGATACTGAAAACAAGTCACTGAATAGTCACTGATAAGTCACTCTTACCAAATATGAATTACACTGAGTGGGAGGAGGGACAGTGATCACCACCGAAGACATTATATGAAAAAAAATGGCACTGGCAGCCACCGGGAGCTTTGCTATGTTAGCAAAGCTGAGCTGTTGCAGTGGGGTGATGTATATTGCCTATGTAGGCATAGGACGTTGGATTTCAGTGATTGAGAGGAGATATCTTGTTTCCCAAGACCTCTCCGGTCTGTTCTAGCAAAGCACCTCCTTTGTACCGCTGTAGAGCAAGGACTGCTTTGTGCAGCACTCCCTCCCATCATAGCTTTCCGGAGGTTTCTTGCACCTGTTTCATCTTGCACTAAAGCTGAAAACGAGCAGGGAGATAATCCATACTGCGGCACTCTGCGGAGCAGCCCACAAAGGGAAGTTCAAGGGGCCGCCAGTTGTTGAAATATAGCCCTGGCTTAGTGATGTTAGAAAAAATCTGATTTTGCTTTGCTTTGCTTTCTGGCTGCGATAGTCACTGTGTTTAATCTTGCAAAAGATAAGAAATAATAATCATTTTTTAAAAGCACAAAAAAGCCAAGTTCGTAAATCTTATCTAAAGTGCACTTAGGCTTGCTGCCCTTTCATCACTCAACATGCAAGGTGTCAGCTCAGCTGGAGACAGATGAATTATGGGGCTCATCATGAGTCCTGTAGAAAGAAAGGTTTCCCTGTGCTTCATAATGTGCAGTGCTGAATAAAGCACCAGTTGGGACATCAGCATGGTCTGGAGGTGACTGGTGCGTGGGACCTGGGCCCTGACACTTTGCTGTGTGGGGGCTACCAACAGACACATGGTGTCCCCCTTCTAACTCCATCCTACACAGGAAGCTATGTGGTTGGGGTTTGCCTGTGGGTATCTGTGAGCTCAAGGTTGCCTCAGTCCTCACCAACATCTCAGTCTCTGCCACTGTTTTGACGTGGCAGTTCTGCAAAGGGGGAGGACCAGGGCAGGATGGGGACAGCACTACCAGCTGCCAAGCCCTGCAAAGCCTCAATACTCATCCCCAAAATCAGGGCTTTCCTCTTGATTTCCAAAAGTGCTTAAGAAGCAGAAGTCTTTGTTGAGCTCTGAGGGAAAATGTGGCCTTTGGAAGTTTTGAAGCTGAGGTCACGGGACCTGTCCTGCTGCCTGTGTGGCAAGCCCAAGTACTGTGGCCCAACCAGCTGGTAGTGTCCTTGCCCACAGGTGTTGCGACCCAGCTGTTCCCCCTGCAGCTGTGCTCCCCAGCAAGAAGCACTGGGCTAACTCCAGTGTAAAGAAATCATTGCTCTCACTGTTTCACCCAGACTTTAAATAGTTTATGCATTCCTGGTTTTTAATTCATGTCTTCCCAG
Seq C2 exon
TGATAAAGACAAAGATCTTGTCAGCTCATGACAAGGGCTCCCATGCAGAAGTCAACGTGAAGATCAAGAAAGTCTTGAAGTCTACAAAGCTGAAGATTCTGCGGGGTAAGAGGACGCTCTACCCCGAGTCCTGGACTAACAGAGGCTGCACCTGTCCAATCCTCAATCCTG
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000011406:ENSGALT00000018613:8
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=0.000
Domain overlap (PFAM):
C1:
PF0175916=NTR=PU(9.3=41.7)
A:
NA
C2:
PF0175916=NTR=FE(52.8=100)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Other assemblies
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
AAATGCGAGTGTAAGGAGCAAGT
R:
CAGGATTGAGGATTGGACAGGTG
Band lengths:
238-2043
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]