DreINT0106979 @ danRer10
Intron Retention
Gene
ENSDARG00000076748 | ntn2
Description
netrin 2 [Source:ZFIN;Acc:ZDB-GENE-050310-2]
Coordinates
chr24:38838974-38842084:-
Coord C1 exon
chr24:38842010-38842084
Coord A exon
chr24:38840255-38842009
Coord C2 exon
chr24:38838974-38840254
Length
1755 bp
Sequences
Splice sites
5' ss Seq
ATGGTACGA
5' ss Score
7.82
3' ss Seq
TGTCATGTTTGTGTGTGTAGCGG
3' ss Score
7.28
Exon sequences
Seq C1 exon
ATTGTGACTCTTACTGTAAACCACTGAAGGGAAATCTCAAGATAAACATGAAGAAATACTGCAAAAAGGACTATG
Seq A exon
GTACGATTCATTTATCACTTCATATTCCAATAAATAATATTCAGTCTGTGCTTCCCTTTCTCTCACTTCTCATGTTAGAAGCATTTGATCAAAATCAGCTGACATTTGTTAACCTTCTGAGCAGTACTGACATACAGTTGGTCAAATTTATTCGTCTCCTGTGATTTCTTTTCAAATATTTCTCAAATGATGTTTTACAGATTTAGGAAATTTTCACAGTATTTCCCATAATATTTCTTCTTCTGAAGAAAGTCTTAGGGTGCTTTCACACCTACACTTTTGTTTCAGATCGTGTCTCGATTGCCCAGTTAGCGCGGTTCGTTTGGCATATGTGAACAGGGCAATCGCGCTCTGTTCCGCACCAAAGTAATCGCTCCGAGATCGCTTGAATGAGGTGGTCTTGGCTCGATTGAAACAAACCCTGGAGCGGTTCGATTGCATTGAGAAAGCGATCCGATCCGAGCGCGGTTATATCACAGTGTTTTATTGATATATAATAGGCATATGGCTATATGAAGAGAGAATTATGAGTAGGGCGGGAAGTTTCGCGAGTCTCCGGATGCCCGCAAACGAGTGATGATCTCCCGGTAATCTCGCGTCTCCCTCCCGGTCCGCAAATAGGCATTGTCGCACACCCTTCTCACCCCTCCCCACCGCATCTCTCCTCTCCGCACCCTGTCAATCACCACCAAACCACCACCTCTCCTGACAGCTGAGCGGGACGCTGCAAAATAAACCCTGACACTCTGACTAATGTGAGGAGAGTTTACTCACACGTGACTTTTTTAACTCTTTTGGTCTGATTAGAAACTTTGCAGTGTGAAAGCGAACCGCTCCAAGAGCAAAGAGCAACAATGTAACAATTGTAATCTCTGTTTCGGAACAACTGAATCGATTCACAGGTGTGAAAGCAGCCTTATTTGCTTTATTTCGGCTGGAATAAAAGCAGTTTTTAATTGTTTTAAGTGAAGTTTATGTATAAACAAATTTCGAGAGGATCACGTGCTTATGATTGCTAGCAGCTGACCTGCATTATCTAATTCACTACGATCCAATCAGATGACTCCTAAACTACTATAAATACCCAGGGGTTTATTCCATTGCTATGTTTTGAAGAGTCCCCCCTTCCTCCTCTACTCCTCCTTCTTAGACGGGTGACACGGTGGCCCAGTGCATAGCACTGTCGCCTCACAGCAAGAATGTCTCTGATTCCTGGCTTTACCAAAACTAGCAGACATTTCTGTGTGGAGTTTGCACTTCTCCCCGTGCTCACGTGGGTTTCCCCCGGGTTCCCCGGTTTCCTCCCACCGCCTAAAAACATGCAATTAAGTCAATTGAACAATCCAAATTGTCAACATAGACACGCTTCTAGTTAGTAATTAATTTCAAGAGCATTCACTTGCTACAGCGGGGGAGTTCTCGAGATCTACCTGAGCTCAAACTCCCCTCCCGCCTTGCAACGGGAGGGAGCCCTGGGCTCGAGGATCTCATGAGCTCAGGGCTCTCTCCCGGGACAGCATGCCAAACAAGCTTTTATAATTAATCATCAGCTAAGTGTGAACTCTTGAAATGTATTTAAGCTCAATATTATTAGCCCCCTTATAGCCCCCAATATTTGTTTTGGATTGTCTACAGAACAAACCAATATGTTTAGCGCTGAAAACAAATCTTCTAACAGAAAATGGGGGGAAAATATTTAGGGTGTCTAATAATTGTGACTAAAAGTATGTGTGATTGTCATGTTTGTGTGTGTAG
Seq C2 exon
CGGTTCAGGTCAGTGTTTTAGACATGGAGACCGTCGGTGACTGGGCCAAATTTTCGGTGAGCCTGATGTCTGTGTACAAGAGTCGCGGAGACCCACTGAAAAGAGGCGATCACATGCTGTGGGTTCACATGAAGGATCTGGCCTGTAAATGTCCTCGGATACACATGGGCAAACGCTTCCTCATCCTGGGCAGCACTGAGGGCACGGCAAACCCTGAACGCCCGGGACTGCAGGCCGACAAAAACAGCCTGGTCATCCAGTGGAGGGACATTTGGACGCGACGACTGCGCAAGTTCCAGCGCAAAGAGAAGAAAGGCAAGTGCAGCAAAGCATGATGGGATTGATGGGAACTCAACTTTATTATTGACCACTGTCCTGCAAGTGCAGGAGACTTGAAACTATTGTCGTCTGTGCGTTTTTGGTGCGTATCGTCCTGATGGTCAGCCTTCTAAAGGGACCGTAAAAAAGACTGCTTCCAATCACACACCACTGAATCTCACAAACACACACACAGGAACACACGGACTGATTCCATTTCCTCTCCAAGCCACAATTTAATCAATCAAATATGAACGTTGAAATCAGCAGAATGAGTGTGTGCGCATCTGGTTTGCTTCTTCTGGTCACACTGGTGTTCACCACATGCTGCTCTCGCTTCAGTCCTGAAAACCTCAAATCGTCTTCATCGGCTGCCTGGATCCTTTCACTTTTCAAGACCTTATTAAGCTGTGGGTTTGTGTTGTACGTGCGGATGTCTGCTTTGATACTGAAGGATCTTTTTTTTGTTTTAATTTAGCTCAAAATGAAGCAAGCCTCCATGATCTGTCCTTTAGAGAGAAACATAATCGGCTCAAGTACGCAGTCGGTTTCTGTGTGCATATTTAACATGTTTTCTTGAGTTACTGCGGCAGGAACAAATGTCTGTCGGTGAAGGGAAAGTTCGCCCAACTTTGAATGCTTTCTCATCATTTACTCGCACTCATGTCGTTCCAAACCCATGGTGTGTTATTCTATTCTGTGGAACGCACGCGGAAAATTTCCCTCTTTTCCATATAACAACAGGCTGCGAAATGAGCACTGTTAGAGTAATCCAGCGGATGTCTGAAATAACTGAGAGAAGACGATTCATTAAAGTTATTAAGTGGCATCTGGAGGTTATAGGGTATGAGTTGTATGGACTGGTTGTTCCTTGAAGGATGTTGTTAAAATATGTTATATATTCAAGAAAAGGGGTGCGTTTCCTAAACAACAACTTAGATTGTGGCTAACTGTCAAAGGACG
VastDB Features
Vast-tools module Information
Secondary ID
ENSDARG00000076748:ENSDART00000154461:8
Average complexity
IR
Mappability confidence:
NA
Protein Impact
Alternative protein isoforms
No structure available
Features
Disorder rate (Iupred):
C1=0.000 A=NA C2=0.108
Domain overlap (PFAM):
C1:
PF0175916=NTR=PU(7.3=30.8)
A:
NA
C2:
PF0175916=NTR=PD(91.7=89.3)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Associated events
Conservation
Mouse
(mm10)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
ACCACTGAAGGGAAATCTCAAGA
R:
AGTCGTCGCGTCCAAATGTC
Band lengths:
342-2097
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]