DreINT0091849 @ danRer10
Intron Retention
Gene
ENSDARG00000028533 | macf1a
Description
microtubule-actin crosslinking factor 1a [Source:ZFIN;Acc:ZDB-GENE-030131-3606]
Coordinates
chr19:35491350-35492251:-
Coord C1 exon
chr19:35492025-35492251
Coord A exon
chr19:35491557-35492024
Coord C2 exon
chr19:35491350-35491556
Length
468 bp
Sequences
Splice sites
5' ss Seq
AAGGTGAAG
5' ss Score
5.73
3' ss Seq
AATGTGCATGTCTGGCTCAGGAG
3' ss Score
4.83
Exon sequences
Seq C1 exon
GCGAGGAGGTCTTGTTGATCCAAGAGAAGTTGGATGGCATCAAAAGTCGCTACGCTGAAATGACGGCGGGCAGTAGCAAGGCCCTTCGGACCCTGGAACAGGCCCTTCAGTTGGCCACACGATTTGCCAGCTCACACGATGACATCAATCAATGGCTGGATAGAGTGGAGGCGGAGCTTAACAACGCTGAGCCAGACACAACACCAGCCTATCAGGACAGACAGAAG
Seq A exon
GTGAAGGATGTTTTCCAGCCACTTTTTTTACTTAATTTTAGTATTTGTTAGATCAAATTAGGGGGTGGTTCAGTGGTTAGCACTGTTGCCTCACAGCAAGAAGGCCACTGGTTTGAGTCCCTGCTGGGCCAATTGGCATTTCTGTGTGGAGTTTGCATGTTCTTCCTGTGTTCGCATGGATTTCCTCAGGGTGTTCCGGTTTCCCCCACAGTCCAAAGACATGCGGTACAGGTGAAATGTCTAAACGTAGTTTATATGTGTGTGGGTGAATGCGAGAGTGTTTCCCAGTGCTGGGTTGCGGCTGAAAGGGCATCTGCCTAGTAAAACATGTGCTGGAATAGTTGGCGGTTCATTCCGCTGTGGCGACCCCTGATAAATAAGGAACTAAGCTGAAAGAAAATTAATGAATTAATGAATGAATGAATAACTCAAATTAATGTCATTACTGAATGTGCATGTCTGGCTCAG
Seq C2 exon
GAGCTGAAGTGTGTTTCTGCTGAGAAGAGGTTAGTTCTGGACACAGTGAATGAGGTGGGCAGTGCTTTACTGGATCTGGTACCCTGGCGTGCACGGGAAGGACTGGACCGCCTGGTTGCTGATGCCAATCAGCGATACCGCCAAGCAGACGAGACCATCACACAGAGAGTGCAGTTAGTGCAGGCTGCCATCCAAAGGTCACAGCAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSDARG00000028533:ENSDART00000146394:64
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.289 A=NA C2=0.000
Domain overlap (PFAM):
C1:
PF0043516=Spectrin=PD(30.8=43.4)
A:
NA
C2:
PF0043516=Spectrin=PU(3.7=5.8)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Associated events
Conservation
Chicken
(galGal4)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
AGTCGCTACGCTGAAATGACG
R:
CTGTGTGATGGTCTCGTCTGC
Band lengths:
348-816
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]