DreINT0106977 @ danRer10
Intron Retention
Gene
ENSDARG00000076748 | ntn2
Description
netrin 2 [Source:ZFIN;Acc:ZDB-GENE-050310-2]
Coordinates
chr24:38843980-38845699:-
Coord C1 exon
chr24:38845550-38845699
Coord A exon
chr24:38844034-38845549
Coord C2 exon
chr24:38843980-38844033
Length
1516 bp
Sequences
Splice sites
5' ss Seq
TCAGTGAGT
5' ss Score
7.68
3' ss Seq
CACTGTCCTGTGTCTTTCAGAAA
3' ss Score
10.63
Exon sequences
Seq C1 exon
CATGTGACTGCCATCCGGTGGGAGCTGCAGGTAAGACGTGTAACCAGACGACGGGTCAGTGCCCGTGTAAAGACGGAGTGACCGGCATCACCTGTAACCGCTGTGCTAAAGGCTATCAGCAGAGTCGATCGCCCGTCGCCCCGTGCATCA
Seq A exon
GTGAGTCACACACACCTAATGTTTCTCATTACATGAAGACTTCTTCGACAAAGACTATCCCTAATACTCAATCCTGTCCCCAACCCTGACAGAAAGCCATCTGCATATAAAGACAAAATTCAATTCATGTAGCATAAATAAACATTCTGTTTTATTTTTACATTTTTAGTCTATTTGTTTTGTTTATTTGGTAGTTATTACTGTACATATAATCATTTGGCAGCTTGCAAATGAGAAACATATGGCCATAATAGGTGTATTGAATATATGAACACATATATTAAATAACAGCTAATGTATTTGACCATATAAAGTCATATGCACTCTCCGGCCACTTTATTAGGTACACCTTACTACCACCGAGTTTGACCCTGTTTTGCCTTCAGAAGTGCTTTAATCCTTCGTGGTGTAAACTCAACAAGATACTGGAAATATTCCTCAGAGATTTTGCTCCATATTGACATTAAAGCATCACACAGTTGCTGCAGATTTGTCGACTGTACATCCATGATGTGAATCTCTTATTCCACCACATCCCAAAGGTGCTTTATTGGATTGAGATCTGGTGACTGTGGGGGCCGTTTGAGTACAGTGAACTCATTGTCATTTTCAAGAAACCAGTCTGAGATGATTCGTGCTTTATGACATGGTGCGTTATCCTGCTGGAGGTAGCCATCAGAAGATGGAGACACTGGGGTCCTAAAGGGATGGACATGGTCAGCAAAAATGCTCAGGTAGGCTGTGGCGTTGACACAATGCTCAATTGATACTAACAGGCCCAAAGTGTGCCAAGAAAATCTCCCCCACACCATTACACCACCACCACCACCAGCCTGAACCGCTGATACAAGGCAGGATGGATCCATGCTTTCATGTTGTTGATGCCAAATTCTGACCCGACCATCTGAATGTGGCAGCAGAAATGGAGACTCATCGGAGCAGGCAACGTTTCTCCAATCTTCTATTGTCCAGTTTTGGTGAGTCTGTGTGAATTGTAGCCTCAGTTTCCTGTTCTTAGCTGACAGGAGTGGCACCCGGTGTGGTCTTCTAATGCTGTAGCCCATCTGCCTCAAGGTTGGACGTGTTGTGCAAGGCATTTGCGCCCACAGAACTACCGCTCACTGGATATTTTCTCTTTCTGGACCATTCTCTGTAAATCCTAAAGATGGTTGTGCATGAAAATCCCAGTAGATCAGCAGTTTCTGAAATACTCAGAGCAGCCCGTCTGGCACCAACAACGATGTCATGTTCAAAGTCACTTGAATCCCCTTTCTTCCCCATTCTGATGCTCGGTTTGAACTGCTGCCATGTGATTGACTGATTAGAATTTGCATTAATGAGATATTGGACAGGTGTACCTAATAAAGTGGCCGCTGAGTGTATATTAATGCATAATATTCTAATCCACAGTGAATAACATTTCAATCAAGGTCAACATTTTAACAGTTCATGCATTTCTTGAGAATCGAATCCATGTCTACAGTGAAACACACTCACACTGTCCTGTGTCTTTCAG
Seq C2 exon
AAATCCCGGTTATCAAGCCAACGGCTGTGATCAGCACTACAGAGGAGCCTGCAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSDARG00000076748:ENSDART00000154461:6
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:
PF0005319=Laminin_EGF=WD(100=94.1)
A:
NA
C2:
NO
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Associated events
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
CATGTGACTGCCATCCGGTG
R:
CAGGCTCCTCTGTAGTGCTGA
Band lengths:
201-1717
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]