GgaINT1020052 @ galGal4
Intron Retention
Gene
ENSGALG00000023626 | NTN1
Description
Netrin-1 [Source:UniProtKB/Swiss-Prot;Acc:Q90922]
Coordinates
chr18:2064501-2066954:+
Coord C1 exon
chr18:2064501-2064575
Coord A exon
chr18:2064576-2066625
Coord C2 exon
chr18:2066626-2066954
Length
2050 bp
Sequences
Splice sites
5' ss Seq
ACGGTGAGC
5' ss Score
9.44
3' ss Seq
TCTCCCTCCTCCTTTTCCAGCTG
3' ss Score
12.31
Exon sequences
Seq C1 exon
ACTGTGACTCGTACTGCAAAGCCTCCAAGGGGAAGCTGAAGATCAACATGAAGAAGTACTGCAAGAAGGACTACG
Seq A exon
GTGAGCGCAGCCACCCCAAACCCAGCAGTGCTGTGCTGTAGGGCGAGGGGCAGACAGGGCTGCAGGGCAGGTGGTGCTGTGGGATGTGGTGTTATGGGATAAGAGATGTTATGGTGTAAGAGATGTTATGGGATAAGAGATGTTATGGGGAATGGGATGCAGTGGGATTTAAGATGTTATGGAATAAGAGATACTATGGGATAAGAGGTGTTATGGGTTAAGAGATGCTGTGGAATAAGTGATGTTGTGGGATAAGAGATGCTATGGGGTAAGAGATGCTTTGGAATATGAGATGCTATGGGATATGAGATGTTAACGGGATATGAGATGTTACGGGATATGAGATGCTATGGGAGAAGTGATGCTGTGGGAGAAGAGACGCTCTGTGATATAAGATATGCAATAAGAGATATTATAGGATAAGAGATGCTGTGGGATAAGTGATGTTATGGGATAAGAGATGCTGTGGGATAAGTGATGTTATGGGATAAGAGGTGCTATGGGATAAGAGATGCTATGGGAGAAGTGATGCTGAGGAATAAGAGATGCTGTGGGATAAGTGATGCCATGGGATGGGATAGGCAGTGCTGCAGGGTAGATGATGCTGTGGGATGAGTGCTGCTGTGGGGTAGAGAATGCCATGGGATAAGCAATGCTGCAGAGTCAGGAGTGCTTTGGGATAAGCAACACCGCAGTGCAACACTTTGGGATAAGGAATGCTTTGGGGTCAGCGATGCTGTGCGACAGCAGTGCTTTGGGATGGGGGATGAGCGATGCTGTGGGACCAGCAATGGGGCAGCTCGGTGCTGGGACAGCTCACACTTCCCGCAGAGCTGGCAGGGAAGAAAGGGCTGAAAAGTTGCACGGGGGGATAATGCAGCCCCTCTGAGTGACACCGCAACGGGACGCCAATTAGGAGACTCTTTTCCTCACCGTTCCATGGCACCGCTACGCTGAATGTCCTCAAAGGCCCTAATTAGCTGAACGGAGCTCCTGCTCCCGCGGGCTCCACCGGCCGCTATCACCCCACGCTCCTCAATGGGGCCTTTGAGCCGCCCGCCCCATTCACGGGCTGAAAGGGGATGTTGTCCCCGATTCACTTCCCCTATCTCTCCGCTTTGGGTACTGTTGCGGTGGTTTTTTGTTGGCTTTTCTTTTGATAAATTGGGCTCTTTCCCACAAGATGGGTTCAGTGCAAATATTTGCAGTGCAGCAGTGATGGGGAGGGATGGGGGAGAGGTTGGGGGGGAGGGGGGGAGCGTCCTACAGCGCTGTGCCCACTGCGGCACTGCGGGGAGAGCCCCAGCAGAGGTGTGGGGATGGGATGGCCCTGTGCCCCACCGGGATTAGGGGCTGTAAATCCCCCATATTGAGGCAGTAGGAAACTGGCGGCCGGAGAGGCAAAGCTCAGAGCCTTTGCCAAACACGTTAAAAAAAAAATAGAATAAAAAGGAAAGAAAAAATCCCAGATGAACATTTTGCTCCAGCGGGGGAGGATGCAGTGCTTTCCATTCCCAGAGTGTCATCACTGCGGCCCCAAAGGCGCTGCCCTATATCCTCTGCATGCGGGATGCAGTGGGGCTGAGCACGGGATGCTGTGGGGTTGAGCATGGGATGCTGTGGGGCTGCATATGAGATACAGTGGGGGCTGCATATGGGCTGCAGTGCATCTCCATGTGGGATGCAGTAGGGCTGAGCATGGGACACTACGGGGTTGAGCATGGAATGCTGTTGGGCTGCATGTGGGATGCGATAGGGCTGAGCATGAGATGCAGGGGGGATGCTTAGGGGANNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNTGCAGTACTCGGGTGTAGGCGATGTGCAGTGCGGGATGGGGGTGTGTGGTGCGCAATGGAGGGCTGTGCAGCGCGGGGTGGAGGGGTGAGGCTGAGCTGGCTCTCCTCCCTCCAGCTCACACCTAACAGCCTTTCTCCTCTCCCTCCTCCTTTTCCAG
Seq C2 exon
CTGTGCAGATCCACATCCTGAAAGCGGAAAAAAATGCTGACTGGTGGAAGTTCACCGTCAACATCATCTCCGTCTACAAACAGGGCAGCAACCGGCTGCGGCGCGGGGACCAGACCCTGTGGGTGCACGCCAAGGACATCGCCTGCAAGTGCCCCAAGGTGAAGCCCATGAAGAAGTACCTCCTGCTGGGCAGCACCGAGGACTCTCCCGACCAGAGCGGCATCATCGCGGACAAGAGCAGCCTGGTGATCCAATGGCGGGACACGTGGGCACGGCGGCTGCGGAAGTTCCAGCAGAGGGAGAAGAAGGGGAAGTGTAGGAAGGCGTAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000023626:ENSGALT00000039331:5
Average complexity
IR
Mappability confidence:
NA
Protein Impact
Alternative protein isoforms
No structure available
Features
Disorder rate (Iupred):
C1=0.000 A=NA C2=0.037
Domain overlap (PFAM):
C1:
PF0175916=NTR=PU(7.5=30.8)
A:
NA
C2:
PF0175916=NTR=PD(91.6=89.1)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping 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]