DreINT0156618 @ danRer10
Intron Retention
Gene
ENSDARG00000036913 | st6galnac6
Description
ST6 (alpha-N-acetyl-neuraminyl-2,3-beta-galactosyl-1,3)-N-acetylgalactosaminide alpha-2,6-sialyltransferase 6 [Source:ZFIN;Acc:ZDB-GENE-060322-7]
Coordinates
chr21:3670004-3671542:-
Coord C1 exon
chr21:3671134-3671542
Coord A exon
chr21:3670112-3671133
Coord C2 exon
chr21:3670004-3670111
Length
1022 bp
Sequences
Splice sites
5' ss Seq
CAGGTGAAC
5' ss Score
5.56
3' ss Seq
TTCTTTTCCTATTTTCACAGAAA
3' ss Score
9.39
Exon sequences
Seq C1 exon
AGCCTGAACCTGCACTGCCATCACTCGCATTAGTGACCAGCTCCAGTCACGTGTTGGGCTCTCAGGCAGGCGAGGAGATCGACAGAACGCAGTGTGTTTTCCGCATGAACAATGCTCCCACCTCCGGACACCAGTCAGATGTGGGCAACCGGACCACTGTTCGCGTCGTGGCTCACTCCAGCGTCTTCAGCGTGGTCCGCAAGCCGGCAGAGTTTCTCAACCGCTCTGAAAACCCCATCATCATTTTCTGGGGCCCGTCCTCCAAGATCAGCCGGGAAGCAAAGGGAACGCTGTACCACCTCATCCAGAGAGTCAGCATGACCTACAGAAACCTGTCCTTCTTCTTCATCTCACCCAGCAAAATGCAGAAGTTTGATGCGCTTTTCCAGAAGGAGACCGGCAGAGACAG
Seq A exon
GTGAACTCACCAGAGCATGTTTGATTGTGTGTTTTAGGCGTTTTAGCACTGATTTGATACAAATTTGGCACTTGAGTAAATGTACAGACACCCTTATACACATATACGCTCACCGGCCACTTTATTAGGTACACCTGTCCAGCAGGCTCACCAAAATTGTACAATAGAAGATTAGAAAAACGCTCCCTGGTCTAATGAATCTCGATTTCTGCTGTGACATTCGGATGGTCGGGTCAGAATTTGGCATCAACAACATGAAAGCATGGATCCATCCTGCCTTGTATCAACAGTTCAGGCTGGTGGTGGTGGTGTAATGGTGTGGGGAATGTTTTCTTGGCACACTTTGGGCCCATTAGTACCAATTGAGCATCATGTCAGCGCCACAGCCTACCTGAGTATTGCTGCTGACAATGTCCATATCATTATGACCACACTGTACCCATCGTCTTTTTTTTATAACTATTTTTAGGGGTTTTCACCTTTATTCGATAGGACAGTAGAGAGAATTGACAGGAAAACATGGGGATTAGAGAGAGGGGAAGGTTTGACATAGGACTCGAGTCGCCGTGATCACCGGAGTGCATGTGTCGACGCACTAACCACTACACTACTAGCGCTGAAACTGTGCCCATCTTCTGATGGCTACTTCTAGCAGGACAACGAGCCATGTCATATAGCACAAATCATCTCAGACTGGATTCTTGAACATGACAATGAGTTCACTGTACTCAAATGGCCTCCACAGTCACCAGAACTCAATCCAATTGATCACCTTTGGGATGTGGGGGAAGGGGAGATTTGCATCATGGATGTGCAGCCGACAAATCATTTCAATATGTCAATATTGAGCAAAATCCCTGAGGAATATTTCCATTATTTTGTTGAATCTATGGCACGAAGGGTTAAGGCAGTTCTGAAGGGAAAATTCAGTCCAACCCGGAACTAGTCAGCTGTACCTAATAAAGTGGCCGGTGTGTGAATTATTATTAGAAGCATTTTTTTTTCTTTTCCTATTTTCACAG
Seq C2 exon
AAAAAAGTCTCAGTCCTGGTTAAGCACCGGCTGGTTCACCATGGTGATCGCCATAGAGATGTGTGACAACATAAAGGTTTATGGGATGGTGCCACCAAACTATTGTGG
VastDB Features
Vast-tools module Information
Secondary ID
ENSDARG00000036913:ENSDART00000133792:2
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.128 A=NA C2=0.000
Domain overlap (PFAM):
C1:
PF0077713=Glyco_transf_29=FE(45.4=100)
A:
NA
C2:
PF0077713=Glyco_transf_29=FE(12.9=100)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Associated events
Conservation
Human
(hg38)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
CACCAGTCAGATGTGGGCAAC
R:
CACATCTCTATGGCGATCACCA
Band lengths:
344-1366
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]