DreINT0027902 @ danRer10
Intron Retention
Gene
ENSDARG00000079388 | agrn
Description
agrin [Source:ZFIN;Acc:ZDB-GENE-030131-1033]
Coordinates
chr23:23921616-23925553:+
Coord C1 exon
chr23:23921616-23921741
Coord A exon
chr23:23921742-23925425
Coord C2 exon
chr23:23925426-23925553
Length
3684 bp
Sequences
Splice sites
5' ss Seq
CATGTAAGT
5' ss Score
8.31
3' ss Seq
TTCCCTGCCTTGCCCCACAGCCA
3' ss Score
10.23
Exon sequences
Seq C1 exon
GTACAACAGTAGCTACTACCACTCTTCCCACAGCTGAGGAGCGATCGTCCTGTGACAACACAGCGTTCGGCTGCTGTCCCGATGGGAAGACGGCCGCCGTCAACTCAGAGGGCACAAACTGCCCAT
Seq A exon
GTAAGTGCTTGATGATCACTGCCTAACAGGTTTCACTTACTTTATATTACAGATGACAGCACGTGTTTGTTTATTAACTGTGTGAATATATCTGACTAAGCTGTTAAGCTAAGCGACTAAGCTTTTTTTTTGGTGAAAGATTGAGAGGATGGTGAGGAGGAGGAGCTGGTAATAACAGAGGAAACTATAGTTGATGAGGGTATATTATCTCAAGCGTGCCATATGGATGTTAGTTTAATGTGCCCAGGGTGCAAAATTAGCTCTTGTGATGCGCCAAATGCTTGTAAAATGTGCCCGTTATTCAGCAGTTGGCTGGTATCAGGAACTGAAAGAAAATACATGGGTGAAAAAGAAGCTGTAGTTTTAAGGTGTGACATTACCGCCATTACTGTCTTGAGAAAACATTAGAAAAGTTTTTTTTTCATTAAAAAAACGAAATATTGAAAACCATTTGCTTAATACGTTGCTGGAAACTTTTAAACTTTTTTTAATGAAACTTTTTTTTTTGTGAAGGAATGAATTATTAATTTCAAAAAAATTTTGACGAACATCATATTTTAATTTACTAACATAGAGAGGAAGATTCGGAAGTTATTTAAGATATTTTTGAATCATTTGAAACTTAATAAACCTTCTCCGATGACATGTCTGAGCGATATAACAACACAAATGTGACTGCAAAGGTGAACCTAAAGATGAGGGCCTAAACTAAACTCAGTGGAGGCTCAACGCTCTTCGCACCTTGTGTTGTAAATGCACCTCAGAGCCAATTATATAAATTATTATAACTAATAAATTAATTAGTATTATTTTTTTACTTTCACAGTTAATTCACGTCTTTACTTTTTAAATGAAAATAAAGTAGCCTGTACATATTAAAAAAATACATAAAAGAATAAGCAAGCATATCAAATTTGGCTATATTAAATGATTAAAAATGTCCAGCTATTAAATATAAATCTTAAAAGGTAAAGTGATATATGAAAAAAAATTATGTGTTTTTCTTCAAATGAAGCATGAGCACACTCTGCTTTGCATCTTACAAACACAACCAAGCCTTAAAAATACACTCTGGACTACCCCTTTAAAGAAAAACAGTCAAAAAAATTACACTTCGTTTATCCATACTGTGGAAACACTACACAAAGTGTTAATTTTGGCCCCTGAGTGTGCCAGATGCAGGGAAGCAGGTTCCGTGTCTCTCAGCAACCGTAGCAAATGGATAAACCAATTCTCCGAAATGTGTTGTGACTGGCATTAGACCAGATGTGTCCATACACACACAAACCTTTTTCCCTTGCAGCAGCCCCATCTGTTTTATAAGAGCAGAAATTACACACAATAGAGACTAATCAATACACGACAGTCAGAGAGAAGCAGGCAGATGTTTTGTGTTCTCTGGATAGGAACACTAGGTCAAGTGCTCACGTCTCTTCTCATATCCGTCAGCCGGGGCTCGTAACTCCCCACCGTTTATTGGCGATGTGTCACAGCAGCTGGATGTTGAGGGCGCTAATGTCCATGGCATTCAGTGTCTGCTGTCAGCTAAAACTCTACTGTCTGAAGGAGAAGCCCATATCAAGGTGTTTTCCTGAAAGGCTGAGAGAAGCAAACTGTCATTCACTCCCTGTTGACCTAAAGTAGTGATAGAGAGCGTTGTTTAACTAGGCCCGTGCAGAATCTGCCATGATTATAACTGATATGACAATGTGGATATTAACGAATCCAAAGCCCAAGATTTGGTAGAAGAGGATTCAAAATAAATACTTGTCAATGTAAATAGGAGTGACATGCATACTACAATTTAAAGGCTAACACTATACTCATATGTATGTTTATAATTGCATTTTTTTTAAAATATACATTAAATTGTCGGCAGCTAGCTCTTTGCAACTCTCACATGGTCTCCCTCTGAAGCTAAGCAGGGCTGTGCCCGGTCAGTACCTGGACCGGAGACCACATGGGAAAGCTAGGTTGCTGCTGGAATGAGTGTTAGTGGGGCCAGTGGGGGGCGCTTAACCTGCGGTCTGTGTGGGTCCTAACACCCCAGTATAGTGAAGGGGACTGCTGAGTAAGTGCTGTCTTTCAGATGAGACGTTAAACCGAGGTCCTGACTCTCTGTGGTCGTTAAAAATCATGGCCTCCTAACCAATACCATATTATAATTGGCTTCATCACTCTCCATCAATCAGCTGGTGTGTGGTCTGGTGCTGCCGTCGCATCATCCAGGAGGATGCTGCACACTGTTGGTGGAAGAGAAGATTACCCCAATGTGAAAAGCACTTTGAGTGTCTAAAAAAGCGCTATATAAATGTAATATTTTACCTCATTATTTAATTTTATTTAATTAATATTATTATTTTAAATAATTAAAAATATAGCATTGTGCAAAGGGATATATATAAATGTTCAAATTGTTTTCAGTTGGGCTTAAAAAAATAATTTTGGACCCTGGAAAAGATTAATTTTACAATGCTTTTATAATAGACTGTTATACTACGCTACTGTTACAATTAGTGTTTATTCTCCAATGTTGTCCCCTAAAAAGCAAGCCTGTGATGTAAACTAGGGGGTCTTAGATGCCGCCACCCCACCGCTCTGAACAAAAGTTTAAAATATTAGTTAAGAAAGAATTTACATATCTAGTGCAAATTAAAATTATATAGCTCGTTGTACAACAGGGCGCCATCTGGACGCTTTGTAACCAAAGATAAGGATGTTTTTTTTCTTAATGAGCACACGCTAGAAATGATGGACCATAGCCGTATTGTGGACTTCAATTCCAATCCACATCTAAAGCCCGATTTCCCCACATGTCTTTTTGCGCTCCGTGGGAAATTCCTTTCCTCAGATGTTTCCGATTTCGAATCCGATCGCTGTTTCCCTCCATCTCTCTTCACATTCAAATCTCCCCCATTTGCTCCTTTTTGAAAGTCCCATCAGATACGAGCTGATGTGTGTCTGTGCAAAAAGACCCTTATCATGCAGTTTTAACCAGCTTCTGTCACTCAGCCGTTCCTGGGATTAGAAGACAATTACGGCTATCTTTCATGATAATCATACAAGTGCTTATCCCGGTCCCAGCCAAGCTGGAGCCCGGCCGGCATGATTGATTTGGGCAATTTGTTCAGCTGATTACATGCTGCACAGAACCCAGCGTCAGGCCCGCTCCCCGCTCTCCCCCAGTCGTTTATTCATTATTTATTTCTCTTCGTCATGTAAAAGCTCGTCTCTGATCCTCTCTCACTCTTTCCCCTTATTAGTGTCAATGGGAAAGGTCAGCCGTAACCTTAAAGGAATGTTTAATGATGACCTGACCCCAGTCAGGGCATATGAAAGTGTCTTTTAACGTAATATCTGTGATATATTGTGCTATGTATGTCAGTGTCGCTGTCTAACCAATCTCTCTCCACTCAGTCCTCCATGCCAGCTTTTGGGAAGAGTCTCGGTCTGGTAAACTCCAGTCCATCCTCCCTTCAAGCATCCATACTCTCACATAATTCCCAATACGTCTACCTTCACTGCAAATAAAACTCGCTTTCCCCCACGACTAACCCCACAAAGGCTCCATCACTAACTTTACAGACTTGCATTGCACCAACCACAAGTGCGTGTACAGTAGCTAAGTGGACTGGCACTGTCTCTTTTATATAACCATATGTACTTCCCTGCCTTGCCCCACAG
Seq C2 exon
CCACCATGCGTTTCAGCGGCTTCCTGCACCTGGATAAGGTTGAGGGTCAGGAGGTCTTCTACACGCCTGAGATGGAGGACCCCAAATCGGAACTGTTTGGTGAAACGGCCCGAAGCATCGAGAGCGCT
VastDB Features
Vast-tools module Information
Secondary ID
ENSDARG00000079388:ENSDART00000162838:18
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.721 A=NA C2=0.435
Domain overlap (PFAM):
C1:
PF0139015=SEA=PU(0.9=2.3)
A:
NA
C2:
PF0139015=SEA=PU(38.2=97.7)
Main Inclusion Isoform:
NA
Other Inclusion 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]