DreINT0098422 @ danRer10
Intron Retention
Gene
ENSDARG00000005590 | mtf2
Description
metal response element binding transcription factor 2 [Source:ZFIN;Acc:ZDB-GENE-060512-94]
Coordinates
chr2:10847968-10848832:-
Coord C1 exon
chr2:10848606-10848832
Coord A exon
chr2:10848167-10848605
Coord C2 exon
chr2:10847968-10848166
Length
439 bp
Sequences
Splice sites
5' ss Seq
GAGGTAAGA
5' ss Score
10.06
3' ss Seq
CTGTTGTGCCCATTTGACAGAGA
3' ss Score
5.03
Exon sequences
Seq C1 exon
GCGCGAGCGCGTCCCATAATGCACTCGCCGCTCAGCGGGAAACCAAAATGGCGAGAGCGAGCGATCAAAAGCACCCGTTTACTACAGTCTGAAACACTTCAGGCGTTTGAATCATCTCCTAAAAGCAGCAGCACCACCTCGATTCACAGCGAAGCTCCGGCTGCCCGTTTATGTTGTAGTTCTTTGTGTTTGTGAGGCATTGTAACCCGGGAAAGTGACCGAATGAG
Seq A exon
GTAAGAGAGACCCAGACAGCAACCAGCCTGTTACAATACAACAAGGGGGTGTGCGGGGGTTTTTCATCCTTATCTTAACAGCAGGAAAAATTGCTACGTTCAGACGTACATTTTCAGATTTCACTAAAACAAACTCGTCGGGCTTTTGAACTGGAAGGTTTTATCTAATGGTACGCTGTTTTGAGTGAGAAACCCAGTTAGCTCTCTCCAGCTATGCTGCTAACAAAAGAGGCTTTTTTGCTTCACTTCTTTATGGGCGCTTCACTGACCAGTCTATTCAAGTGCCAGATGTACTAGCCCTGCCCTCATTTTACACCTGTAACTTAATACTTGCTTTAGGGATGTGTTTTGCCTTGTTGTTGTTTATTTGAGCATGTATAAATTACTTTTTTTGGTATGTGTGTCTGACTGTGTAACAACTGTTGTGCCCATTTGACAG
Seq C2 exon
AGACTCAGCAAGTGCAGATAACCTGGCCGCCCATCAAAATACTCCAAATCGCCAACACAAGTCCCCTGTGTCCTTGCCCCGATTTCCCTTGAAAGATGGGCTGACCGACACGACAAAGCTTGCTGGCAAGTTTGAGGAAGGGCAGGACGTCCTGGCCCGGTGGTCAGATGGCCTCTTTTACCTGGGAACCATCTCCAAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSDARG00000005590:ENSDART00000122709:1
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion (1st CDS intron)
No structure available
Features
Disorder rate (Iupred):
C1=0.000 A=NA C2=0.381
Domain overlap (PFAM):
C1:
NO
A:
NA
C2:
PF150571=DUF4537=PU(32.8=28.4)
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:
AGCGATCAAAAGCACCCGTTT
R:
GGTTCCCAGGTAAAAGAGGCC
Band lengths:
358-797
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]