DreINT0024706 @ danRer10
Intron Retention
Gene
ENSDARG00000019207 | abo
Description
ABO blood group (transferase A, alpha 1-3-N-acetylgalactosaminyltransferase; transferase B, alpha 1-3-galactosyltransferase) [Source:ZFIN;Acc:ZDB-GENE-081104-23]
Coordinates
chr5:24521253-24522610:-
Coord C1 exon
chr5:24522476-24522610
Coord A exon
chr5:24521944-24522475
Coord C2 exon
chr5:24521253-24521943
Length
532 bp
Sequences
Splice sites
5' ss Seq
CAAGTGAGT
5' ss Score
9.1
3' ss Seq
ACTCCATCTTCATGTTTCAGATA
3' ss Score
10
Exon sequences
Seq C1 exon
CCCATATAGCCAAGCTGAATTGACACCATGGTTAGCCCCAATTGTATGGGAGGGAACGTTTGATCCCAAACTGATTGATTCAATCTACAAAAAACAGAACATCACAGTAGCGACTACAGTCTTCGCTCTTGGCAA
Seq A exon
GTGAGTTCATTTGCATTTCCCTGACCTTTTTAAGCTTTGTATTAAACTCAGCTTTTAAGCCTGTACTGGGGGGGTGGGGGGGGGGGTTATCTGTTGTTTTTATGTAGACTATTAGGGACATTAAGCCAAAGGCATTACTGATTTACGTCCCTAATAAATACCTTGTTTTATCTAATGGTATCTCACTTTCAATGTTCAGTATTGGAGTTTAGTGAGTGAATACATTAAATGTTATAATGCTTCCTTTAGAGCAGGGGTCACCAATCTCGGTCCAGGAGGGCCGGTGTCCATGCATGGTTTAGCTCTAACATGCCTCAACACACCTACCTGGGTGTTTCAAGTATACCTAGTAAGACCTTGATTAGCTTGTTCAGGTGTGTTTGATTAGGGATGGAGCTAAAATCTGCAGGACACCGGCCCTCCAGGAACAAGTTTGGAGACTCCTGCTTTAGAGAATCGCCTATAAAGATTTAGAACTTTTAAAGGCCATTTCACTTTATTTTTTTAATCATACTCCATCTTCATGTTTCAG
Seq C2 exon
ATACACAGTGTTTCTTAAAGATTTCCTGGAGTCTGCAGAGCGCTATTACTTTGTTGGGTTTCGTGTGCACTATTATGTCTTCACCGATCACCCAGAACAGGTTCCTGTTGTGAAACTGGGTGTAGAACGTAAACTGACGGTGATGACAGTTAAAAGTTCTAACAGATGGCAGGAGATGACATTGCGGAGGATGGAGAGGGTGGAGAAACTGATTGAGAGCCGATTGGTGAAGGAAGCAGACTATGTTTTCAGCCTTGATGTGGATACAAAGTTCTACGGCCGCTGGGGAGCAGAGACTTTGGGTGATCTTATAGGTGTGATTCATCCTGGTTACTATCATACACGACGTGAGCAATTCCCTTATGAGCGAAGGCCTGAGTCTCAAGCGTTTATCCCTTATTCTGAAGGTGATTATTATTATTGTGGAGCTGTGCTTGGTGGTAAAGTGAAAGATGTACATGAGGTTGCTAAAACCTGCCGAGAGCAGCTGGACATCGATGCAGCTAAATCCATTGAGGCAGCATGGCAGGAGGAGTCCCATTTGAATAAGTATTTGCTGTATAACAAACCCAGTAAACTGCTTTCACCTGAGTACATGTGGCAGGACTTGGTACCGCAGGCAAATAGGGTCAAAATCATTCGCTTCTCTCAAGTTATTAAAAATTATGCAGACGTTCGTCCAAACCCATAA
VastDB Features
Vast-tools module Information
Secondary ID
ENSDARG00000019207:ENSDART00000027237:3
Average complexity
IR
Mappability confidence:
NA
Protein Impact
Alternative protein isoforms
No structure available
Features
Disorder rate (Iupred):
C1=0.000 A=NA C2=0.000
Domain overlap (PFAM):
C1:
PF034148=Glyco_transf_6=FE(16.2=100)
A:
NA
C2:
PF034148=Glyco_transf_6=PD(81.7=98.3)
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:
GACACCATGGTTAGCCCCAAT
R:
TCCTTCACCAATCGGCTCTCA
Band lengths:
348-880
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]