HsaINT0010636 @ hg19
Intron Retention
Gene
ENSG00000173627 | APOBEC4
Description
apolipoprotein B mRNA editing enzyme, catalytic polypeptide-like 4 (putative) [Source:HGNC Symbol;Acc:32152]
Coordinates
chr1:183615411-183622448:-
Coord C1 exon
chr1:183622207-183622448
Coord A exon
chr1:183617947-183622206
Coord C2 exon
chr1:183615411-183617946
Length
4260 bp
Sequences
Splice sites
5' ss Seq
ATGGTAATT
5' ss Score
6.49
3' ss Seq
AATTTCTCTTCCTTGTTTAGGTT
3' ss Score
11.11
Exon sequences
Seq C1 exon
AGTGTTCTTAGAGGTAGCCACACCTCAGCAAGGGCTTTCTAACTTGGAACAGCAAAGTTCAAATGAACGAATAGACACAAACTGTGAAAGAGTCCTGAACCCATTACAAGGTGAATCTTTACAGCACAATTGCCTTCTGAAGCTACTTGAAACAGGGCATGGGACTTAAAGGAGAAAAAAAAGGAAATGGACCATCTCTTCTAACACCTGGAATGTGATCCAAGCCTGGAGACAAATTGATG
Seq A exon
GTAATTATAACTGCTAACATTTGTTTTTAGCTGCTAACAGATTGTGCACAGATTGTGAAGGGCAAACTCCATTCTCCAATTACTCCAGTGCAAACTGTGCTTTAACAGTACTCACTAAATCCTAGTTGAGTGAAATGAGAGCAGATTGTCCTTATGGTGTGGTTCATTTATGTTAAACTATGGAAAGCTGTCCTCCCACGGTCCCAGTCCAGGGGCCACTCACAGCCAGATGCAGAGAGCCCTCCAGCACGCTGGGCTCTACACATCTCTGTTCTTACTGCCAGCAAATCTGCTCTACAGAGTATAACATGTATTTCCCAAGCACAGACAAAGCAAAAGGAAAAGGGCTAGGCAGGAAGTAGGGACACCAGCTGCTGGGGAAACAAGTCTTAAGCAACCTGGCTTGTGAGCCAATCAAGGTTGCTAAGGTAGGTCCTGGGCCTAAACAGGGTACATTTCCACCTGGTTGGGGAGAATAAAATGACAGATACCAAAAGTTAACAAGATAATCTGTGGTCGATAACAAATTGATACAATAAACCATGAATTCTCTAAGAGTTCAAAGAGGGCAACAGTTCTTTCCTGCTTCCTCTTCAGATGAGGGTGATCAAAGAACAAGCCCAGAAAGACTCTGAAAAAGTGAAAACTTCACCAATAGGAAACTATAGTTGGTTGACACTGAAAAGTTGTCAGCAAGAATGAGACTACAGAGCTCCCTCCACTATGTGTTAAAGCCACAGTCCTCTCCATCTCCTTAAAGACAGTAATGATGTATCATTTCTGGCTAAAACAGCCACAGAAGATGGGGGTGCAAAGGAAGGCGTGCTTAGAAAAGCAATAGGGAGTTTCCATTTTGCTACCTTTATCTAAAAACACACAAAGACTTTTGTTTCCCAAAAGGGTAATTATGGGACCATTATATATAGTTAACTCCACATACACATCACCTTAAGAAATAGTAATAAAGACAGAAAAGTGCCTTTTGGTTCTGTTTCCATAACATTTAGCCAAATCAATCTGTAAATTGTCTATGGGTGAGTTGAAATTGTAATCTGAGCAGTAACCTGGATGTCCGGTGTACCACCCATAAGTCGACCACATCAAGGGCACAATATTAAAAAGCATGAAAGTTTGGGCTTGGTTTTGGCAAGTTCTGATGGAGAGATCCATCCAGCCTGATGAAGGCTAAGCAAGGAGGAGGTCCAGAGAGGAAACAATGCTCGGGAGTAAGCAGGAAATGGCGTCAGGTTCCAAGAGATCGTCCACTGCCAAGGGTTAAATCCAGCTCTCTAGAAGGAAAGCTATGACAAGGTCTAGGAAGCCTCAAGGCAGGAATTCAGTTACATCAGGAAAATATAGTACTAAGGAAAAAACAAAGCTAATGTCCAATCCTATGGATTAAGATGACACAGCAGAGGCTAGGAGAAATCTAGAATCTGGTGGGTATGTGGTGCCAGAGTTACTGCAGGATATTAGCCACTAAGATAATGGTGACATGAATAAAGCTACATTCCACCTACAGCTGGATTGAGGCTTTTAACATATTTTCTGCCCAGGATAGGATTAGCATAGGAACTCTGCAGGTTTCAGGCTAGAGATCAAGCTGTATCAAATACAGCAATGAATGAGCTGATGTGGGCTGAGGAAGACAGAAGGTGAACATAGCACTTCCATATGAGAGGCCATAATTTATTTATTAGCACAAGTATTCATACTTGTGATATGATAAGTGAGATTTTGAAAAGTGAAAAATATATTCTGTTGCAATGGTCAGTTTACCTCATTTAAATTTTCTGCCTTATCAGTTTTGTTATCTGACAAAGTTAAATGTAAAAAATGAAACCATAAATACTAGAAGAAAATATGGGGAATACTTAATTATGCTTTGATGAGGAAGGCATTTCTAAATACAATAAGAAAAAAAATCACAGGAGTAGAGACTGGACCACATAAAAATGTAAAATTTGGTGCAATTAAAATAACATTGGCATAATTAAAAGGCTGTATAAACCAGGTAAAATATTAGCAGCAAATGTGGCAGATTTAATATTCTTGATGCATAAAAATGTCTTGCAAACCAATAAGGAAAACTTCACGCAAAAAATAGGTAAAAAATCAAATATATTTCACAGAAGAATAAATACCACAGACCAATAAGCATGTCAAAAAGTGTTCAACTTCACTAGAAATAATAAAGGCACACATTATAGCAACAAAAAAATACCAATGCTCCCTTCTCAAATTGGGATAAACAACATTGTAAGAGAATGTGATAAGATTGGTACACCTTCCTAGGAAGCGATTTGACAATGTTTGACCTAATACTATGATTTCTAGTAATCTATTCTAAAAAAAAAAAAAAATCTGATTCTTTATAATAAATATTATATAATATATGCAATAGATAATTTCTCACAGAAATATTTATCAAAGTGTTATAATAATTAAAAGAGGCAAGAAACTGAATGTTACAGTTACATAATAAAAAACTAATTAGCCATGAATATTGTGTTTTTTGTTTTTCGTTTTGAGACAGAGTCTCGCTCTGTCACCCAGGCTGGAGTGCAGTGGTGGGATGTTGGCTCACTGCAAGCTCTGCCTCCTGGGTTCACGCTATTCTCCTGCCTCAGCCTCCCGAGTAACTGGGACTACAGGCGCATGCCACCACACCTGGCTAATTTTTTACATTTTTAGTAGAGACGGGGTTTCACCATGTTAGCCAGGATTGTCTCCATCTCCTGACCTCATGATCCGCCCACCCTGGCCTCCCAAAGTGCTGGGATTATAGGCGTGAGCCACCACGCCTGGCCGAATATTATTTTTAATAACATGGGAAAATGCTCATGGCACAATATTAAGTGAAAAAGCAGGGTATAAAACATGACTTTGTTTATATTATATGTAACATACACATATAGCAAAAAGACTGGAGGGAATAGACATGTTAATAGTGACGGAAGGCTGGACATGGTGGTTCACACCTGTAATCCCAGCACTTTGGGAGGCCAAGGTAGGAGGATCACTTGAGCCCAGGAGTTCGAGATCAGTGTGGGCAACATAGGGAGACTGTATCCCTCCTAAAAAATAAAAAAATTATCTGGGCATGGTGGTACATACCTGTGGTCTCAGCTATTTGGGAGGCTGAGGCAGGAGGATCACTTGAGCCCGGAAGGTTGGGGCCACAGTGAGCCATGATCATCTCACTGCACTGCAATCTGAGCAACAGAGCAAGACTGTCTCAAAAACAAACAAAATAGGTAGCTCCTAGAGCATTATAGGAACAACGATAACTGAAGGAATATTTTTTAAAGGAAAAAATCATTACTTAAAGATCTCAGCTTTTTGAGTTTAACATCCCAGAAACTACTAATTTGAAATATTCTAAAGAACCATATTTGCTTTCTGTAACAGTAATTTTTCAAAAGTCTTCTAACAAGACCCACTCACGGGAAAGAAAACTCTTACATGTCAATGAATGAGTGTCCACAATCCAAAGAATACTCAAGTGGCACTTTCCTAAGAAGTCTCTATCATTAAGCAAAAGAGATCCCATGATCCTAGTCTCAAAAAAAACCCAAAAACCTCCAAATTATTTCCAGTGATTTTAAGAAAGTTGATGTTAAATGCAAGCACACTGAATAGTTCTGCACAATACATTAGATGTTAACATATTCTGAGAAGAAAGATCATGAACAAAATGCAAAACACTTTTTTGTACTTTTATAATTAGGAATAATCTAGATAACCCTAGGATTTGTACTTTTACTACTAAGAGTTAATATTTACTGAGTCCTTACTATGTGACAAGCACATTAGTGAAGCATTTTATATTCATTCTGTTATTCAATGCTCAAGACAATCTTATCAGGTAAGTACTATTAATATCTTCATTTTACAGACAAGGAATCTGTGGCTCCCAAATGTTAAATAACTTGTCAAAGGCCACCAAGCTGATAATTGGCCAAGCCCAAATTTAAAACCAGACAGTCTGTTTCTAGAACTTGCATTGTTAACTCATTTGCTTTACTGACTTGGAATCTATGAAACAGGTAAAGTTGAAGAACGCCTTTCTCTTCTGTTTCCTCCCCATGCTCTAGGAGTCTCAATAAAGAATAATGAATCCTGAGCTTTTAAATCTATGCATATATCACTATCTTTATTGTGCTACTTCCTTTAAAGAAAGTATGGTTTAATAAATTAATGCACTGTCTTCAGTTTTTCCTGCGCTGGTTTTATATGTAATTTCTCTTCCTTGTTTAG
Seq C2 exon
GTTTGCAGCTAGAAGACAGTAAATCTAGCAATGGAGCCCATATATGAGGAGTACCTAGCAAATCATGGAACAATAGTAAAACCATATTACTGGCTAAGCTTCTCTCTCGATTGCTCTAATTGTCCTTACCATATTCGAACAGGTGAAGAAGCAAGAGTTTCCCTCACAGAATTTTGTCAGATTTTTGGATTCCCTTATGGGACAACATTTCCTCAAACAAAACACCTCACATTTTATGAACTAAAAACTTCTTCTGGTAGCCTGGTGCAAAAGGGCCATGCTAGCAGTTGCACTGGGAATTATATCCATCCAGAATCAATGCTCTTTGAAATGAATGGTTATCTTGACTCAGCCATATACAATAATGACAGCATCAGGCATATCATTCTGTATTCCAACAACTCCCCTTGTAATGAAGCTAACCACTGCTGCATCAGCAAAATGTATAATTTCCTGATTACGTATCCAGGCATCACTCTTAGTATTTATTTTTCTCAGCTCTATCATACTGAGATGGACTTTCCTGCCTCAGCATGGAACCGCGAAGCTCTCCGGAGCCTGGCCAGCTTATGGCCGCGGGTTGTTTTGAGTCCAATAAGTGGTGGGATCTGGCATTCTGTTCTCCACAGCTTTATAAGTGGTGTCTCAGGATCACATGTTTTTCAGCCCATTTTAACTGGGAGAGCACTGGCTGACAGGCACAACGCATATGAAATCAATGCCATAACAGGCGTAAAACCTTACTTCACTGATGTTCTTCTCCAGACAAAAAGGAATCCAAACACAAAAGCTCAGGAGGCTTTAGAGAGCTACCCCTTAAACAATGCCTTTCCTGGACAGTTTTTTCAAATGCCGAGTGGACAACTCCAACCCAACCTACCTCCAGACCTCAGGGCTCCTGTTGTTTTTGTGCTAGTGCCTCTCAGGGACTTACCACCAATGCATATGGGCCAAAACCCAAATAAACCCAGGAATATCGTAAGGCACTTAAATATGCCTCAAATGTCATTCCAGGAAACCAAGGACCTTGGAAGGCTTCCCACTGGAAGGTCAGTGGAGATAGTGGAAATCACAGAACAGTTTGCAAGTAGCAAGGAGGCAGATGAAAAGAAGAAGAAGAAAGGGAAGAAATAAAATCTACATTCCTACAGCATGAAACCAATTACCAAGGGACTTATTAGATAGGCAATAAAAATCTGGAAACTTTCTCTCTCAGGGCTGAGCCAAGATGGAGATAAACTGATGCACTAAAAGCAAACCTTGAATTATTTACCATATCAACTATTATAAAGTTACACTATTTTAAACATAATCCAAAATGTTTCCATAAGCAACTTGATCTCTCTCCTTTATTTTGAAAGTGGCAGTATCAAAATGGAACCATTAGCAGCTTGCTAATATTTTGATGCAGAAAAGGAATCTCATTATTCTATTTTACTCACATCATCTTTCCACTACAAAAGCCCATGGACAAAATAGCTACCTAAATTTGTTTCGGTAAAAAATTTACTGTAAAATTGAAAAACAGCCTGAAGCTACTGACATTAAGTGCTGTTTGCAGGAGCAAACCAGTGATTTTCTATTAATTGTTAATCATGGACAGAAGATTTTAGGCAGCTCATTTTTTTCTAAAGTGATTCAAAATAGTTTTGTGTGGGAAAAAGCTCTTCTGCTGATTACATATAGCTATAAAGATTAAAACCTAGCCACCTGCTCAGTTTGATCTTCCCCAGCTCAGACCTCTCCCTTCTGAGCAGATGATAGAGGTAAGATGATACATGAGAACCTCCAATGGCTCCTGTCATCACATACTGTATAAAATCCAAGTTCCTCTTACTGGCTTTCAAGGATCCTCCTTTAACTTCCTGTTGCCTTGTCTCATCAGCAAGATCATAAGTACCTACAGGTCAAGCACTGTCTCTCCCTTCTCTTTAGCTTTTCCCTTAGGATCTAGCACATTACCCAGCAAAATGTGAGTAGCAAGGCTGAAATGACATCTCAATAACTTCACCAATGATTGTAACTCAGCATCCCTTCTCCATCCCAGCTGAAAGCCTGCTTCACCATCCTGCAAGAGATGTTTTTTCTTTTTGTTAGCATCCATTCCCCTTTCTAATGCAGCTCCCAATGCATAATGTGTGTTTTACTTCCCTCTTTCTGACTCCATCCTCGTCACCAGTGAATATTTGTACCTTCTCTTAAAATCTTCAAAACACACTTCTAGGAAGTGCTCCTTGATTAATCCTCTAAGCACTTAAATGAAAGCACTTTGCTTATGCTTATTTCACATTTGCTGCCACTTGCCTCTTTGAAATATGTAAAGATACATTACAAGAAAAATGTACATTTTCTCGTAACTTGCTATTAATTTTTTTCTTTATATATATATATAAAGTAATCCTAAGCTAATAAAAGAGTTTGCCATGACATTAAAACATTTAATACTCCATAAGGGAGGAGGAGAAAGAAAAACATATTTTAGGAATAGCAATTAGTATTGTGGTTAAAATAAACATGAATAAAAATTTTAAAACAA
VastDB Features
Vast-tools module Information
Secondary ID
ENSG00000173627-APOBEC4:NM_203454:1
Average complexity
IR-C
Mappability confidence:
NA
Protein Impact
5' UTR
No structure available
Features
Disorder rate (Iupred):
C1=NA A=NA C2=NA
Domain overlap (PFAM):
C1:
NA
A:
NA
C2:
PF082106=APOBEC_N=WD(100=52.4)
Main Inclusion Isoform:
NA
Main Skipping Isoform:
NA
Other Inclusion Isoforms:
NA
Associated events
Other assemblies
Conservation
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]
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)