HsaINT0069712 @ hg19
Intron Retention
Gene
ENSG00000198756 | GLT25D2
Description
glycosyltransferase 25 domain containing 2 [Source:HGNC Symbol;Acc:16790]
Coordinates
chr1:183904966-183909921:-
Coord C1 exon
chr1:183909715-183909921
Coord A exon
chr1:183908172-183909714
Coord C2 exon
chr1:183904966-183908171
Length
1543 bp
Sequences
Splice sites
5' ss Seq
CGTGTGAGT
5' ss Score
7.42
3' ss Seq
GGCCACCTTCTTGTTTTCAGAGC
3' ss Score
7.78
Exon sequences
Seq C1 exon
TTATATTGGTAGGAAGAGGATGCAAGTAAAGGAGCCAGAGAAAGCAGTGCCCAATGTGGCAAACCTGGTCGAAGCCGACTATTCCTACTGGACCCTGGGCTACGTCATCTCTCTGGAAGGAGCACAGAAGCTGGTTGGAGCCAATCCTTTTGGGAAGATGCTGCCAGTGGATGAGTTTCTGCCAGTCATGTACAACAAGCATCCCGT
Seq A exon
GTGAGTCTCCCTGAACTGCCTGCCTTCCCTTGGGCACAGCCTCTTCATGAATTATGCTCTCCATTTCTGGTAGTACTTGATATTTTCTAAAGTTGTACTGCTTTCCTAAATGATCTTCTCATAATTATGATTAAGAGAGCCTAACTCAGGTGATTTATCCCTTTGTACAGATGGGAAGGTGAGGCAGAGATGGTGAGTGTCCTGCCCAGAGATTCTTGTAATATCCAGTTTGTAGTTGAACTGAATGTAATGTGCTTGGTCCCCTCCTTGTCTTTGCTCTTCTTATTTCCATAACCTCATACACCTCAAGGTGAAGGCCATCTTCCTAAGCACCTCAAAATTTCCAGTTCCTTTGGCTCAGGTCATTGGGTACTGTTGGCTAAGCAGAGATACCCATTTTTGCATAGCTCACAATCTGGTCAGGAACCCAGACTCATGAACAAATCATCATGATATATTGTGATTCCTGCAATCGCAGGGGTGTGTAAGAGGTTCAGGGAGTGTGGACCTGATACCTGAGCATGATGTCCATGGAAGAAGGGCAGTGTGATGCTTGGGGCTCCCATAGCCCAGGAGCTTACCCTGACCTAGCGCTTATCAAAAGGTGTGGCAATTAATGATTTACCTGTCAATCTCCCCAATAAACTATAAACCCTTTGGGGCAGTAACAGTCTTATGCCTCTGTGTCCTTAGAGCCTAGTCCAAATGCTACACATAACAGCAGCTCCTAAATCATTAATGAATGATTCCTAAATTCATTGATGGAGCAGCATTCGTTCTAACCTTGGCCCCTTCTCTCAGTTGCTGGGTGATCTCGTCACTAGATGGTCTCATTTTAGCTGTTGAGATTTCCTGTGCTGCCACCAGTTCATTTTGTCTCTTGTCCTCAGTAAAAATGGAGTTGTGTGCCCTCTTGTATATAACATGTCAGAGACTGACTTTATCTCTGTGTCCTAGCAGAAACATGGAGGTCAAACCATTATCCCCTAAACAAAAGGGAAATTACTACATTCAGATGTCACCTCATGTACTCTGCACAGGAGCCCTGAGAGGGAGGCCAAGTCATCCGTCTCCTTTACACCTGTTGGAACCGGAGTGGTGAGCAGGGAGCTAGAGCACAAAGCCAAGCCTGCGTGCCTCTAAGCCTCCACGTGCCACATGCCCCATCACTGCTGTCCAGATGTGAGGTGTCTCATTTATTAATCCCAAAGCAGGGCATTTTTGGTGAAGTGATCGTATTTATTTATCATTATGGTCTAACAGGGCTTACTTTTTAACTTTTGGAGTCAGACCTGAAATTCATCTTTTAAACTAGTCTATTCAAATACGTCAGAAATGTCCTGATCTTTTTGCTTGGGAGCTTGTCTTTGGAAAGCTTTTAAAGAAATATTTGTGTTTGTAGGCTAAAGTTTTTCACAAATGACACAATTGAAATAATGAAATGAACTCATGAGGTAACCAGGAGGCCTCCTTCACTCTTTGTCCCTGTTCCGTAAGTCTCCTTTCCGCCCCCTCATGTGTCCGGCCACCTTCTTGTTTTCAG
Seq C2 exon
AGCCGAGTACAAGGAGTATTATGAATCCAGGGACCTGAAAGCCTTCTCTGCAGAACCCTTGCTCATCTACCCTACGCACTACACAGGCCAGCCGGGGTACCTGAGTGACACGGAGACCTCCACCATCTGGGACAATGAGACAGTGGCCACCGACTGGGATAGGACACATGCCTGGAAGTCCCGGAAGCAAAGCCGCATCTACAGCAATGCCAAGAACACAGAGGCCCTGCCACCGCCAACCTCCCTGGACACTGTGCCTTCAAGGGATGAGCTATGAAGGCTCCCTGGGAGTGTGGCCCACATCAGTTCAACATCCTCTGGTTTTTCTAAAGGGCTATTCATCTGTTTGCTCCAGTTTTCTGTTTTGTTTTGTTCTTAGTGGTCACAGTCATCTAACCAAAGTGATCTAGTGTGATAGATCGAAATTAACATATTTTTGACCATGGAAGGAAATAAGGAAATTCAACCCAAATTTCCCAAGACGGCTGAAAGACAGGTTTTTTGGAAACTGTTAAGATAAACTGTAATCCAGACACCTAATTCTTCAGTTCACTACTCATGTGATACTGATTCCCACATTAAGGTTGAACAACATGGCTCAGAGTCTTGTTCAAGAGAAAGTGATCACCGAGCTGTCACATCAGCAAATATGTAGTCAAGGCAGCCAGGCCAACTAGACCACACTTATTGGTCTAGTTTGTCCGTTTTATATGACATTGAAAACTTGTGTGTGCAACTTTTGGGGGACAGGAATCACTTAAAATCATATTTATTTGGCTTTTTATTTAAAGGATTCTGTCACAAGTCTTATTGAAAAGTAGATTTTTTAAAAAAAAAAAATCTTAGTCCCTGTTATCCAGTAGGGGTGGGTATTTGGGTCCGACTGAGACTTGGCCTGTGACCATCATGGCAGTTGGAGTTCTCATATAGAGGTGACCAGTTTGCCATGTGGATATAATTTAGTAGATATTTGACAGTTTGTGTAGGTATTTGAGGGAAAAAACTCAATGTTTGGCTTTTTTATTATGGCCACTCGAGTCAGGATGCTCTATTTATAAAGATAAATGTAATATATAAAGGGTGAGGACTGGCTGTGCATCCTGCCCTGTCCCGGGTTTGCGCGCTGCTACAGAGCTTCACGCTCTCCGCTCCACCCCTTAGCCTGGGAACCCACCGCAGGTGTGAGTTCTGTGAGTCACTGCTAAGAGACAGAGCACATTTTCAGGCCAGCAACTATCCTTGCCAGAGTTTTTTCATTATATTTTGAATTATTTATTTTACAAAATGGGCGAAGATATTGTCTTTAGGATAAGGCAGAGAAACAGATGTTGCAGACTTCCACGGCACCCGGGGGAGTGGTGGGTGTGGACACATTGGTTCGGCAATCTGATTCTCCTGAATTTCCCAGCCAGGCTCTTGTGGGGAGGCCTGTGGATGGGGGGATTTGAACTATTTGGAAACAAATGATTCTCTATCTCAGGTGAGAAACCTGGTCAGAAACAAAGGGCTGGTCACCTGATTTAGGCCAGCAACCAGGGAAGCTCTTAGAATCCCAGGCGGACACCCTTTCTCAAAAGATATCCCCTAAGAGTCCTTTCTGCTTTCTTCACAGATTGATTTTATGTAAAATGCAGAGTTGGACTACACGATTTCTTCCCACTCCACAATCTGTCATCCTAGTATAGATCATGGTGGTTTCCCTCAAGTTTATGTTCTCATGCCCTCAATCTGTAAATTTTTGTCTCCAGAAAAACCCTCCCAGGCATCCCATACCAGCACCGTTCCTCATCACTGTCCATGCACCATGCAGCCATATGGGGGGCCGTGCACACCCCAAACCCTGAGCTTCACACTTAAACTCATGGGGAGGGCCCTTCAGAGCAGAGTCCACAGGCGGGTGGTGCTACATACACAAGCTTAGTGTACGAGTGTAAGATACACTTTAAGCCAGACACCTAATTCTTCAGTTCACTGCCCATGTGATACTGATTGCCACATTAAGGTTGAACAGCATGGCTCAGAGTCTAGAGAAAGTGATCACCAAGCTGTCTCATCACCAAATAGGTAGTCAAGGCAGCCTCATCTCCCCAGGTGAGGGGCGGGTCCCCACTTTAGGACAAGAGGCAGCTTGCCTTCCACCAGACGCCAGCCTCGGCCTTCCTTCCCGACTCACTGTGGGTACCCTTCTACACTGACCAGCAAGCTAGGCCGCTGGAGGAAAGGGAACTCACCCAACTCTAAATTGTGCCGCTTAGACTTAGCTGTCAGTGTGACTTCCTTTCCCACCCACCCCCAGAAAAACAGAAAGAGCATCTGGGGAGCGAGTGAAAATTCCTTAGGTGATTCCTAAGATTTCCTTGGGTATCTGGTTTTTGTTTTCATATTTGAGTGTGTGCATGTGTGCATGACTTTAATGACTTTTTTAATGGGGTGGGAGGTGGCTGGGGTGCTGGGGTTGAAGGAAGTTTGGGTTGATTTTTGTGGTGTTTTGTTTAATAGAGAATTTTTTTTTTCCTGTTCCCCTGTCAGCTGGTCTGACAGATTTAAGAACTCTCATTCTTAAAAGACTTTGGACTTAAATTCTAGCATTTTAGACTAGGACTGTTCTACTGTGAAGAAAGTTCTGTCTCCTTTAGCCCGGTTTGTTTCTCCCTGCTCAGGTCTAGAATCCCAAGCAGTGTTCTTTTCTGGTGAACACTGTGAGCCGCAGATGTGACTTTTTTTTTAAAGTCATCTCTTCAGCAATCCAGAGGTTCCTTGACCTCATTATTTGTCCTATCTCTCCCTTATAGTCCTAAGCCAAGACATTTGACCTTTGACATTTGACCTTTGCAGTGTCATGTGAGGGCGTCAGTATAGAGGCCTTTGCATCTGGGCCTGGCACCCGCTCTCTGCCTCTGGAGGCTAAACCCTGTCTGGATTTCTCTTGGGATCTAACGTGGGATCTTCTGGACAGACAACCGTGACATCAGCAGTGCTGGTGCTGCTGTGTGTGGACTGAACACCTGCACTTTGCAGAGGACACGCTGCATGGGCCCCGCTTGCGGTTCATTCAGGCCTGCTGCAGGAGCTCTGAGAACAAGAAAGAGTGGACACCCGTTCCCCTGCATCATCTGTCTTGCGTGCTATTTCAGAGTGGGGAAGTGATAAACTATTTGCCTTCTGGAGCTCTTTGTGAAAAATTAAAAAAAAACTTAGCTCAAAGA
VastDB Features
Vast-tools module Information
Secondary ID
ENSG00000198756-GLT25D2:NM_015101:11
Average complexity
IR-S
Mappability confidence:
NA
Protein Impact
Alternative protein isoforms
No structure available
Features
Disorder rate (Iupred):
C1=0.000 A=NA C2=0.283
Domain overlap (PFAM):
C1:
PF0175512=Glyco_transf_25=PD(44.8=85.7)
A:
NA
C2:
NO
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Associated events
Other assemblies
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
CAGAAGCTGGTTGGAGCCAAT
R:
CTTGAAGGCACAGTGTCCAGG
Band lengths:
347-1890
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]
SPECIAL DATASETS
- Autistic and control brains
- Pre-implantation embryo development
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)