HsaINT0152598 @ hg19
Intron Retention
Gene
ENSG00000080189 | SLC35C2
Description
solute carrier family 35, member C2 [Source:HGNC Symbol;Acc:17117]
Coordinates
chr20:44987026-44993064:-
Coord C1 exon
chr20:44993010-44993064
Coord A exon
chr20:44987598-44993009
Coord C2 exon
chr20:44987026-44987597
Length
5412 bp
Sequences
Splice sites
5' ss Seq
GAGGTGAGT
5' ss Score
10.03
3' ss Seq
ATCAGTTTGTGTTTTAAAAGGTC
3' ss Score
6.36
Exon sequences
Seq C1 exon
ATCCGGCCTCGCACTTCCGGTGGGGAGATTCCGGCCTGGAGCTCCCAGGGCCGAG
Seq A exon
GTGAGTGGGTGTGCGGCCGGCCTCCCGGCGCACTCCCAGAGGCTGGGGGGCCGGGGCTGGAGAAGGGAAGCGGGCTCCCCACCCGGGATCTGCGCGGGTTGACATGGGGCACGCCACGCCCCTGCCCCTCCCCGGGCCTCAGTTTCGCCGTCTGTGGAGGGGGCAGGGGTCTCCAAGCGCCCTCCTGCAAGGCACCTGCCGGACGCCGGCTCATCTGGTATTTCCTGAGCACCTGCGACGTCCTGGGTGCGGGACCCGGGCCGGAATCGGACACGGCCCTGCCCTCTGAGGGGCTGCTTCCCGCGGTGGGATTGGGGCGGGCAGTAAACACGTGAGCAAACAAGGAAACGTCAGAGGTGGGAGTGCCACGAGGATTGGGAGGGGTGGGGCATTGGAGAAAGTATTCAGCCAAGCGGAGGTCTGCGGAAGGGAGCTGAAGGCAGGAAGAGCAGCAAGTAAAGAAAAACACAGGTTTGATGTGTTTGACACGTGGCAGGGGGCCGCTGTGGCGGGTGCTGGGACCAGTGGCAGAAGAATGAGGTTACAGAGGCCTTCCTTGTGGACCAGGCTGAGGAGCTGGGCTTAGCCTTAGGGCATGATCTGTTTCGTGTGCCATCTCTCTGGCTGCTTTATAGATTCCAGGCCTTAGGGGCGAAAGAGGAAACAGGGAGACCAGTTAGACCAGTGGCAGTCAGCAGGTGAAAGATAATTGTGGCTTAGACTGTGGTAGTGGGAATGGAGAGGAAGAGAAGTAGAGGGGTCAAGAAGTGTATTGAAAGTGGAACTGACAGGGCAGGATTTGAGAAATGACAGAAATAAGTGGTCAAAGATGACTTCATCATAGATTTTTGGTTTTGGCTTAAGTAACCAAGTGTATTATGCTGGCATTTACTAAATGACTTTGGGATAGATTGGGAGCGTGAGAAATAATTACGAAATCTTCTTAGGGCATCTTAAGTTTTAGATATTTGGAGTGCAGCTACCAAATAGGCAGTTAGATATATGAGTCTGATACAGAAAAGGTCAGGGCTGATGTAAAGAATTTAGAAATCATTGGCAAGTGGATTGGGTAGGATGAGATTATGTAGGGTAAGATTTAAGAGAGAAGAGAAGCCAGGTTCCAAGCTTTAGGCACCCAATTTTTATAGATTGAGTTGACAAGAAGGTGCCAGCAAAAAAGACCAATAAGGAGTCCAGAAAAGCAGAAGAAAAACCAGGAGAATGTGGTATCGTGGCACCCAAGAGAAGGTTTTTTCTAGGAGGAGGAAGTGATCCATTGTGTAAGGTAAGAATAGAGACTAAGCCGGCCCGGCACGGTGGCTCACGCCTGTAATCCCAGAACTTTGGGAGGCCAAGGCGGGCAGATCACCTGAGGCCGGGAGTTCGAGACCAGCCTGACCAACATGGAGAAACCCTGTCTCCACTAAAAATACAAAATTAGCCGGGCATGGTGGCACATGCCTGTATTCCCAGCTCCTCGGGAGCCTGAGGCGGGAGAATCACTTGAACCCGTGAGGCGGAGTTTGCGGTGAGCCGAGATCACGCCATTGCACTCCAGCCTTGAAACTCCATCTCAAAACAACAACAACAACAAAAAGAATAGAGACTAAGCCTTCGAAGGGGCAGCAGGGAGGAGGGTGTGGTGACTCATTGGAGCAGTGGAGATGGGCTGAAGTGAGAGCAGGGGGTGAAGGAGTTGGACTGGCAGTGCGGGGTCCTCTGGGGAAGTTTCACTGTTAAGGGGACCAGGAGGGGAGTAAGCCTCTACCATGAGCCAGCATTTAATGCTGTACCTGATGCCACTTTACAGTTGGAGAAACTGAGTCCAGAGGTCAAGTAACTTAGGGTCACACAGTAGTGAGTAGGGACACCAGGATTTGATTCTCAGTGTCTAACTCCAAAGCCCACACTCTTAAGCACTAAACCATGCTGCCCAAGTTACAGTTAGGAAGATGGAGGGAAGCAGGTGTGCCAGTGATGCACCAGCCAGCCTTACCTTGATGTGACTGCTGCCCCCAGCTAAGCTGCTCTCTGTGGAAAGTGGGGCAGAATATGGACTTTCCTTCCTGAGCAAATGAGATTTCAAAAAGAGTTGTTTACTCCTTTAAATCTTGTTTCCCTTATAAAATAAGGGTGGGGACCTTTTCAGTTTCACGTCTGTGTCTCCAGTGGTGGGCCTACAGGAGTGCTTGATAAATGCTCATTAAGTGCCTAGATGATCTCCAGGGACCCTTCTAGCTGAGATTTGGCTTTGTGTTTGGGCATAGGTGACCTTCTGAATCCCAATAAGAAAATAAGTTAAATTTGAGACAGTGCTTCTTGTAGGCGGGGTAGCCATAGGGACTTATTGGAGGCAGGGGAACTGGGCCAGGTCTGTGAAGGAAGGTCAGCATTTGAACAGTGGAGGGAGGGTGTTGCGGTGTTGCAGTGCTGCAGCAGGAAATGCAGCAAAAGCAGGAGCTGCAAGAAGTTGGTTAACAGAAGAGTGAACAGACTTCCCTGGCTTGGAAGCCACAGGAGGAGCCATGAGGGAAGAGTGCTCAGAAGAAAGCTCTGTTAGTGCCAGCATGTCCTGTGAGTGCCTGTCACAGGACAGGGTCAGCAGTGGTTCTCAACAGGGAGCAGGTTTGATCCTCAGGTGACATATGGCAGTGTCTAGAGACATTTCTTGGGTATCACAACTTGGGATGGGGGGAAGGATGTGACAGGTGTCTGGTGGGTATGGGCCAGGGATGTTGCTAAACATCCTGCCATGTAGAGGATGGGTCTTCTCACAAAGAATTATCTGTCCCCAAACAGCAGTAACGCCCAGGTTGAGAAACCCTGGCGTAGAGGAAACAGTGTGGGTTTTGAGATCTGTAGACGTATGTTTGAGGCCCATGCGCCCTCTTTGTTGGAGGAGCCTGATGGTGGTGGTTGCAGGAGAAGTAGAGAGAACCGTGTAGGAGACTCCTGCAGTCATTTGGGGAGAGGATGGTGGCTGAGATGGTAGTGGTGGAGTTCAGGACATGTGCTCATATTTGGGATATTTCTGAAGATAGAGCTGACGGTATTTATTGATTGAATGTGGGCTAAGGGGAAGAGAGGAATCAGATGAGCCTAAGGCTTTTGGCCTGAGCAACTAGGAGAGTAGTGGAGCCATTTGCTGGGATGGGAAGTAGGAAGAGGAGCAGGCTTGGATGAAATGGGGGTGTGGAAAACACGAGTCAGTTTCAGACACTCTAGATGTGAGTGAGATGCCTGATATTAGATATCTAAGGGAAGAAGAGGTTAGGTAGGCATTGGATATTCTTCTGGAGTTCACATGAATCAGAGCCGGGGCATATATTGGGAAGACATCAGCTTACAGAAGGCATTTGAAGGAATGAGAATGCATTAGGTCAGGTAGGAGTCTCAACTCATTGGATCTGACACCTCTTTTTTATTACAAATATTTTGTAACAGTCCCTTTTATTACCCTAAAATGAAACATATGATTAATAAAAACTGCCTACACATAATTTTTTAAAAATCAACAAATGCAGCCGGGCGCGGTGGCTCACGCCTGTAATCCCAGCACTTTGGGAGGCAAGGCGGGCGGATCACCTGAGGTTGGGAGTTCAAGACCAGCCTGACCAACATGGAGAAACCCCATCTCTACTAAAAATATAAAAAATTAGCCGGGTGTGGTGGTGCATGCCTGTAATCAGTCCCAGCTACTAGGGAGCCTGAGGCAGGAGAATCGCTTGAACCTGGGAGGCGGAGCTTGTGGTGAGCCGAGATTATACCATTGCACTCCAGCCTGGGCAACAGGAGCGAAACTTCGTCTCAAAAAAAAAATAAAATAAAATATAAATAACCATGCCCTATAACATAAAAGGAAAGTAATTGATAGTAAAACAAAATATGTTTCAATATGTAAGTTTCTGGGCACAATAGTGCTGGAAGTTGCAGTGAAGCTGTCCCTTCTGTGTGGACCCTCTAGGAGTGTGATGGCCACAGACACAGACTGACACAGCCGTGTTGTGTCGCACCTCGAAAACCACTAGTGCCATTGCTGTAGATGATGTGGTTTTTCCAGAATGGACACTTTTGGTGCCATTTTGAGACCAATTTTGACCATTTTCAGTCTCCCTTCATTGTACATAGGCGTCTTATTCTTGGAAGTGTTAGTTCACAGCAGAACCATGGAAACACTGCACTGTGTTTACATGTAAACAGAGTTACATTCTAGGTTCAGATAATTATAAGCTAATCTTTCACCTATATGGATGTCAAAGTCGTGCGGGATGCAGAGCAGTAATTGGCTATGTGGACTGCCCCTTCTTTATCCCTGCTTACTGAACGCCAGGAGCATATCCCCAAAATACCGCCACAGGTTTCCAAAGCTCCTCTGAAGACAACTGTAGCCCCAGAGATTCATTTGGACACAGCCAGCTCCCTGTTTGCCCCGGGGAGGGGAAATAGTAACAAGAGTTCCAGAGTGCAGAATGGAATGTAACTGCTCCCTTCAGAAATGTTGGGGTGGGAGATGGAGAATGTGTCTGATCGTGAAGCCTAGGAAGGCTTCGAGAAGAAGGTGGCGTTTCAATAGGATGGGAATGTCTCAAAGGAGGATCTGTGGTTGAGGGGGGCACCCAGATGAAGCAGCAGGTATCATCACATAACACTGGACCTGAGGCTCCTCCAGGCACAGACAGGTCTACCCGGCATGCTCCGGGCACTCATCAGGGTTGGCTGGATTGACAGGGAGGCTGGGAGTGGTTTCATTTGGCAATACCGTAAGGCAGGCTCTGCTTCCAGGGAGTAGTGGTTACAGCCTGGTCTTACAGTGTTCCAGCCGTTAGAGTGTTGGTTTCCTTCTCCATTTTTAACCCCTAAAGACCAGACCAGTCCCCTGAAAATCGCATGCCTGCTCTCTGTCAGTCATCAAACCAGACGGAGAACTTAAAGTACACCAGCTGTGCGTAAGGCCAGTGTGGTCTTACTGGTCCCTATCTTTGTGCCGCTCGTAGCCTCTCAGGGGACAGACATTACTCAAATCACACCCTGCACAAGTGCTATGAAAGAGAAGTAGGAGAGCCGTGAAAGCAACATGTATCTCAGGGGACTGATTCAGGGGATGGGGTGGGGTTCCCTGAAGAAGTGACCTCTGAGCTGAAGATAGGTAGGATTGATGAAGGACTGAAGGGTGGGTGCAGTGTTCGTTCATTTCCTTCAGACAACGGGAAGAAAGCTGGTGTGTTTGGGGAGCTGAAAGGCGCCCAGTGGGGCCAGGTCCTGGAGAGCCTGTGGCTGAGACTGGGAAGACCAGCAGGGCCAGATGAGGCCATGGGAGCCGAAAGAAGGGTGCTGGTCTTTATCAGAAAAGCACTGGAAGCTGCTGAAGGGTTTTAAGCAGTGGCCTGACATGATCAGTTTGTGTTTTAAAAG
Seq C2 exon
GTCACTTTGGTGGCAGTTCATGGAGAATAGCTTGAGGTGACAAGACAGCAGACACGACGTGGGTCTCTGGGACTGCCTGTGCCGTTGTGGGCAGCCCCTCCAGAGCCCTGAGTCACGCAGCCTTCAGAGGCACCCATGGCTACGAGAAGCACAGTCTCTGCCTGAGGCTCCAGAGCGGCCCTTTTTCCCCAGCAGCAGACCTTGGGACCTGTGAGCGCTGCATCCAATTAACCATGGGAAGGGTCAGCACCAGCCACCAGCCCCTTAGGTGAGGACTCTGCCTGGGGCTCTGCTGATGGTTCCGAATCATGGAGCTGCAGAGAGCTCCTCCAGCCTGGAGACGTTCTTGGTGAAAGCTGTGGTCTAACTCCACCGGCTCTTCCTGCACATTGTATTCAAGAGGGGTGCCTGCCCCCGCTGACTCAGGAGCTCCGGTGCTGCAGCCGCCACGAATGGGGAGGTGGGCCCTCGATGTGGCCTTTTTGTGGAAGGCGGTGTTGACCCTGGGGCTGGTGCTTCTCTACTACTGCTTCTCCATCGGCATCACCTTCTACAACAAGTGGCTGACAAAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSG00000080189-SLC35C2:NM_173179:1
Average complexity
IR-C
Mappability confidence:
NA
Protein Impact
No protein impact description available
No structure available
Features
Disorder rate (Iupred):
C1=NA A=NA C2=0.000
Domain overlap (PFAM):
C1:
NA
A:
NA
C2:
PF0089215=EamA=PU(19.9=72.5)
Main Inclusion Isoform:
NA
Main Skipping Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
Associated events
Conservation
Rat
(rn6)
No conservation detected
Chicken
(galGal4)
No conservation detected
Chicken
(galGal3)
No conservation detected
Zebrafish
(danRer10)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
No suggested primer sequences
R:
No suggested primer sequences
Band lengths:
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)