DreINT0156609 @ danRer10
Intron Retention
Gene
ENSDARG00000100804 | st6galnac4
Description
ST6 (alpha-N-acetyl-neuraminyl-2,3-beta-galactosyl-1,3)-N-acetylgalactosaminide alpha-2,6-sialyltransferase 4 [Source:ZFIN;Acc:ZDB-GENE-060322-6]
Coordinates
chr21:3689534-3691347:-
Coord C1 exon
chr21:3691240-3691347
Coord A exon
chr21:3689999-3691239
Coord C2 exon
chr21:3689534-3689998
Length
1241 bp
Sequences
Splice sites
5' ss Seq
CAGGTGAGT
5' ss Score
10.67
3' ss Seq
TGCTTTGGCTTGTTTTGCAGTAA
3' ss Score
7.43
Exon sequences
Seq C1 exon
GATGAAATCAGGAGCGTTTCTGAGTACAGGATTTTTTACCATGATTTTGGCTCTGGAGGTGTGTGACAGTATTCTGGTTTATGGAATGATTGATGGCTCCTATTGCAG
Seq A exon
GTGAGTTCAGTTATTAGTTTTTGTTTTGTTTTCATGAACTTCACTGTTAAGAACACAGAGAAGGCATATATATATATATATATATATATATATATATATATATATATATTACATAAGGTATTAAATATTGTATTATAATAAACAGCTAATTAAATTATTATTATATATAAAATATAAATTTGTCATTCACGCAATTAGTTATCTTTTTTTTTTACGATTTATTTTTCGCCTTTTTTTATTAGATAGGACAGTATTTAGACAGGAAGCAAAGTTGCAGAGAGAGAGGGGGTAGGGCAGGGAAATGTCCTCGAGCCAGGGTCTCGGGACGCCCTGATGTGCTACTGCACCATATGTTGACGCGCTAACCACTAGGCTATTGCGCTGACACAATTAGTTATCTTTTATTAATAATTACAAAATTATAAATGTTTTTTTTATTATTTTTGTGAAAATTGCTTTCTACATTCCAATTTCAATTCATCTTTATTTCTTTAGGGCTTTTACAATGTAGGTTGTGTCAAAGCAGCTGAACATAGAAGTTTTAGTGAATTTAACTGTTAATCTGTTAATTTCGTGAGGTTGAGAGGAGATATAAAATTGTGTAGGGGCCCAAGAACTGAACTGCTACTTCACAGTGTACTTTTGATCGGTATGATGGTCTTCATTAACTGATAAATGTATAATATTCAGATAGATAAGTCCTGAACCAGGCCAATGCAGTTCCAGTAATGCCAACATCATTTTCGAGCCTGTCATGAAGAGAACATTCTGATTGAATGTATCAAATGCAGCACTGAGGTCCAATAACACTGAAGAATGATTTATACTTCTGCGTCAAGTGCACGTGTATGCTACAGCGTGGCCTACACGTGGACGCATAGCCCTCGCCGTGGCCGTCGGCGTCGCTGACACGTACCTCTAAAAAAATTTAACTACACGTCGCAACAACGCGTAGCACAAGCTCTGTGATTGGTTGGCTTGGTATTGCTGAAAAGTGTGGGCGGGACTAAGTGTCGCGCGAGCCCGATGGAGCGATTGTTTACAAGTGTGTTAGAACTAACAATAAATAAAATATTATAATTACTTATGTATGTTTTGTCCCAAAATTCCAATCCAGCATTGACTTAAAATTGAGTCAACAGGATATCTGATCATTCATGCTTTTTTTGCTGGTCTCTTGTGTATAATGGTATTTGTCATGATGCAGTCAGCTAACATCTCTGCTTTGGCTTGTTTTGCAG
Seq C2 exon
TAATGCTAACCACTCATTTGTGCCATACCACTACTATGAGCCGCTGCATCTGGATGAGTGCCGCATGTACCGCGTTCACGAACACGCCAAGAGAGGCGGCCATCGCTTCATCACAGAGAAACTGATTTACAGCCGCTGGGCGTCTCAGGGGAAACTGCGCTTCGTTTATCCTCCGTGGACATCGCAGGAACACCAGCCGCCCTAATTCAACCACTTCTGCTATGTGGTCAAACGTAGGTCAGGCTTTAGTGTATGTTTACGCTAATATCACAAACCACTATGGTGCTTTTAGTGTGTAAATCCAGCCATTAGTTTGGCTTTCGAATCTTGCTGCTTTGCCTTTTTTTAATATTCGGTCCGATTTTATTGCTTTAGTATTAATGGGGTCATGAACTAACAATAGAACTCTCTAAGGTGCGTTTATGATTTTTAAAAGTTTTTTACATGAAAAAAAATCATCATTAA
VastDB Features
Vast-tools module Information
Secondary ID
ENSDARG00000100804:ENSDART00000166652:2
Average complexity
IR
Mappability confidence:
NA
Protein Impact
Alternative protein isoforms
No structure available
Features
Disorder rate (Iupred):
C1=0.000 A=NA C2=0.029
Domain overlap (PFAM):
C1:
PF0077713=Glyco_transf_29=FE(15.7=100)
A:
NA
C2:
PF0077713=Glyco_transf_29=PD(25.2=84.1)
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:
AGGAGCGTTTCTGAGTACAGGA
R:
GCCTGACCTACGTTTGACCAC
Band lengths:
343-1584
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]