DreINT0093695 @ danRer10
Intron Retention
Gene
ENSDARG00000000394 | matr3l1.1
Description
matrin 3-like 1.1 [Source:ZFIN;Acc:ZDB-GENE-030616-40]
Coordinates
chr14:24797312-24798693:-
Coord C1 exon
chr14:24797796-24798693
Coord A exon
chr14:24797374-24797795
Coord C2 exon
chr14:24797312-24797373
Length
422 bp
Sequences
Splice sites
5' ss Seq
ATGGTAAGT
5' ss Score
11.01
3' ss Seq
TCTTTGCTGTTTGTGTGAAGGAA
3' ss Score
6.74
Exon sequences
Seq C1 exon
ACGTGTTTCATTCTGGAGGAGCTCTTTTCTCGATCCAGGCTTAAATCCACGGATTGTCCTTTTGGGGACTTTTTGATTCGCTTTATTCCTCTCTTTTTCCACTCATCTGGAGCACCGTCATTTCAAGGCCATGTCTCAGAAATTGACCAGCGATGATCTTCAAAAAGGCTTTGCTGTTGGCCGCGGGCTTTTGGCTGCTGCTGAGACTTTGAACTTTAGCATGGGTGAGACGCACTCTGACCACTTTGGCTCGTCTTCACAGTCACGTGGTGGCATGTCTGGCTTGGGTGGAGTGGATGGCAAAGACCATGAATCTCAGCTTTCCCGCCGAGCAGGCAGCCACATTAGCAATACTATGAAACTGTTTGCCAGCCTAGGTCTGTCACCAAGTGATCTGGATGCACTGGCACAGGTTCCAGAGGAGAACATCAGTGTGGAGACTTTGCCCCATCTTATTATGCAACTTAAAAATCGCAAGATGGAAGCTGGCCGCCGAATGTCTGGTGATATCTCTACCCATTCTTCCGAGACTTCATACAGAGGTGGCCGAGATACCTGGGGTGAAGGGCAGGGTGGACGATTGGACCGTTCCAGTGGCCAGTCACAAAGTCGTTCCCAAGGCAACTTCAGTTATTCTTCCATGCAAGACACTTCCAGTCGTGGATACGACATATTAGATTACGGCAGCGGTAGTGGAAAAGACCGCCAATATTCTGAGCTTTCCCATGACTCCTACCGCAGCCTTGGTATGTCTTCATCATCAACATCTGACGATATGTTCATGCAAAGAAGAATGGGCGCCCCGTCTCAGGGAAAAGTGCAGGATTTCTTGGGAGTCAGGCCGCTCATGTTTCCTCATATGTGCACCCTTTGTGATTTTGATGTGCACTCTGTCATG
Seq A exon
GTAAGTCGCTTGACTCCTGCACACACATTTTCCACTTCTTGAATCCTGCTTGTTGAAGGCCCTCTTTAAACATCATTTGTTGCATTTAAATCTTCACCTCTAAGTTTAACTTAGCATCAAATTTGTGTAAGATAAATAACCTTACATCTCATTGGACATCTATAGTATATATATATATTTTTTATTTATCTTTATGCTTGGCTCCAGTTAAGACAGTGAATATCAAGAATTCATTTCAGATCCATTTCAGTGCTCATTTATTGCACACACACACACATGCAGAAAGACGAGCTTCTCAAGTTATTTCTGAGCCAGTATGTCAAGGCTTTGAATCGCTTTAGTTCTCACACTTATTTTGTTGTTTTTAATATGTCAAGTTTTTTTTTTTTTTTTTTTTCTAATTCTTTGCTGTTTGTGTGAAG
Seq C2 exon
GAATGGACTCAGCACACAGCTGGGATTCGCCACTCTGAAAACCGGCGACTGCTCCTGCAAAT
VastDB Features
Vast-tools module Information
Secondary ID
ENSDARG00000000394:ENSDART00000144168:2
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion (1st CDS intron)
No structure available
Features
Disorder rate (Iupred):
C1=0.641 A=NA C2=0.143
Domain overlap (PFAM):
C1:
NO
A:
NA
C2:
NO
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:
GTTCCAGTGGCCAGTCACAAA
R:
CCGGTTTTCAGAGTGGCGAAT
Band lengths:
356-778
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]