HsaINT0069724 @ hg19
Intron Retention
Gene
ENSG00000204007 | GLT6D1
Description
glycosyltransferase 6 domain containing 1 [Source:HGNC Symbol;Acc:23671]
Coordinates
chr9:138515502-138518052:-
Coord C1 exon
chr9:138517915-138518052
Coord A exon
chr9:138516517-138517914
Coord C2 exon
chr9:138515502-138516516
Length
1398 bp
Sequences
Splice sites
5' ss Seq
CAGGTAGGT
5' ss Score
10.28
3' ss Seq
CCCCACTGTGTGTTTCCTAGGTT
3' ss Score
10.2
Exon sequences
Seq C1 exon
AAAACGCCCTGATGTTATAACGAAAACAGACTGGCTCGCTCCTGTCCTATGGGAAGGGACTTTCGACAGGCGGGTCCTGGAAAAACATTACAGAAGGCGGAATATCACTGTGGGCCTGGCCGTCTTTGCTACTGGCAG
Seq A exon
GTAGGTGCCACTCACCTTTGCCCTTTTTTATTTTGGGAAAATGTGGATCAGCATTCACGAGCCTTTAACCTCCAAAGAGCCAACCATAATTAAGCATAATTAGTGATAACAATAGCCACGATTTCTGGGGAGAAACAAACTTACCTGTCCAAACCCAAATAAGGGACTCAAAGACCTGGAGAACAGTGAAAGTGAGACTTTTAGTGACAGTCTTGCAAGATCGGATGTCTGATGGGCAGGCACACCCAGCACAGTTTCAACTGCAATTTATCCCCTAGTGCACAGGTCCCTCCCTCAGTTCCTCATAGGCTGAGTACTTGGGGTCACAATCTTCCCAGACGTCGCCTATTTGTTGTTGGGCAGGGGCTTTAGGTGTTTTCTTTAGGGTGGTCTTGCTGCATTTTGTTGCAGCCCACAATGCATTGCAATCCTAGTGAGCTCAGGGGCTCTTCAAGTATCTGACTTATGACCTAAGTAGCTGAGCAGGCTGATAAGAACAGACAAAGTGAGCTATTTTGCAGACTAGTAAAGTTTTATCTTAGACTAAACTTTTTTGGTTTGGGTGAGGGCAACTAAGGCAGGAGGCCGACAAGCAGGCATTGGCTATTTAAGTGGGGACCTAGTATATCCTGTTTCTTTTGTAGTTTGCTGACCTGAGCCGATTTAAGGCCCTTTGTCTTGGAGATGGTCTACTATAGACACGATTTCCTTCAATTTCTGGCTGTCCTGTACAAAAGGTGTGCTGGGTTTCTCTGTCGATGGCCGAGTCCTTAACACCAGTGGGAACCTTTTGACTCATACCCATTTAGCTCCTGCTCCCTTTCTTCACAACAGCCATTCCAAAACATGGTGGCTTTTCTCAGGCCCTCCAGGTCAGGACATTCCTTCCCACTCACCAACTCAGCTGAAGCTGTGGGCCCGACTCCTCCACGCTTGTACATCCCGAGTTCCTTAGCATCAGACACACCCATGTGAGTGCATTCAGCCGCCTCTTCTCCTGATCATGTTTAGAAAAGTAAGTGTCGGCCGGGCACAGTGGCTTATGCCTGTAATCCCAGCACTTTAGGACGCCGAGGTGGGTGGGATCACCTGAGGTCAGGAGTTCGAGACCAGCCTGGCCAACATGGTGAAATACCATCTCTACTGAAAATACAAAAAAAAAAAAAAAAAAATTACCTGGGCGTGGTGGCAGGTGCCTGTAGTCCCAGCTACTTGGGAGGCTGAGGCAGGAGAATTGCTTGGACCCAGGAGGTGGAGGTTGCAGTGAGCCGAGATCACGCCACTGCACTCCAGCCTGGGCATCAGAGGGAGACTCCATCTCAAAAAAAAAAAAAAAAAAAAAAAGAAAGAAAAGAAAAAAGAGAAAAGTAAGTTTCTTCCCCACTGTGTGTTTCCTAG
Seq C2 exon
GTTTGCAGAGGAGTACCTGAGGCCGTTCCTACACTCCGCAAATAAGCACTTCATGACAGGCTACCGAGTGATCTTCTACATCATGGTGGACGCCTTCTTCAAGCTGCCTGACATAGAGCCCAGTCCTCTTCGAACGTTCAAAGCATTTAAAGTGGGCACCGAGAGGTGGTGGCTCGATGGCCCCCTGGTGCATGTGAAGAGCCTGGGTGAACACATCGCCAGTCACATCCAGGACGAGGTGGACTTCCTCTTCAGCATGGCTGCCAACCAGGTCTTCCAGAATGAGTTCGGGGTGGAGACCCTGGGCCCGTTGGTGGCCCAGCTCCACGCCTGGTGGTATTTCAGAAACACCAAGAACTTCCCTTATGAGAGGAGGCCGACCTCAGCAGCTTGCATCCCGTTTGGACAGGGAGATTTCTATTATGGCAACTTGATGGTTGGTGGCACACCCCATAATATTTTAGACTTCATCAAAGAATATCTGAACGGAGTTATTCATGACATCAAAAATGGACTCAATAGCACTTATGAAAAGCACCTTAACAAATATTTTTACCTCAATAAACCCACCTAGCTGTTATCACCAGCATACAGCTGGGATCTTGCATTTTCTCCTCCTCCACAGATCCAATACGTCAAGGTCGCACATGATTCCCAGAGGAAATTATGAATTACGCCATGAGGTTTATGACGAATAAATGAATCACGGCAATTTCTTATAAATGAGGGAAGTCTTAAGACCTTCCATTTTTTAGAGACATACAAATTTACATCCTTCCCAAATAAATGTTTCTTCTTGCCATTTTGAGCCATCTTATTTGGCTAATGTAGGATAAAGAATAAAAGGATAATTACTTAATGTTAATACACAGTAATGTTATTATCTATGTATTGTAGACAATGTGAAAATACATTTGACATAGAATGAATATTTTTAATGGAGAAAGACTCTAGTTGAGAAAAAACATTCATAAAATGGAAAAGTAGTTCACGCAAAGGAAAAAATAAATGCCAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSG00000204007-GLT6D1:NM_182974:4
Average complexity
IR-S
Mappability confidence:
NA
Protein Impact
No protein impact description available
No structure available
Features
Disorder rate (Iupred):
C1=0.000 A=NA C2=0.000
Domain overlap (PFAM):
C1:
PF034148=Glyco_transf_6=FE(17.6=100)
A:
NA
C2:
PF034148=Glyco_transf_6=PD(72.5=99.0)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Conservation
Rat
(rn6)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
TCGCTCCTGTCCTATGGGAAG
R:
GAAGTCCACCTCGTCCTGGAT
Band lengths:
350-1748
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]
Other AS DBs:
FasterDB (Includes CLIP-seq data)
AS-ALPS (AS-induced ALteration of Protein Structure, links to PINs)
APPRIS (Selection of principal isoform)
DEU primates (Only for human)