HsaINT0074190 @ hg38
Intron Retention
Gene
ENSG00000187664 | HAPLN4
Description
hyaluronan and proteoglycan link protein 4 [Source:HGNC Symbol;Acc:HGNC:31357]
Coordinates
chr19:19255641-19258855:-
Coord C1 exon
chr19:19258523-19258855
Coord A exon
chr19:19258209-19258522
Coord C2 exon
chr19:19255641-19258208
Length
314 bp
Sequences
Splice sites
5' ss Seq
CGGGTGCGT
5' ss Score
7.91
3' ss Seq
CCCCCACCTCACCCCCGCAGGGC
3' ss Score
10.43
Exon sequences
Seq C1 exon
GCGTGGTCTTTCCCTACCACCCCCGTGGAGGCCGATACAAGCTGACCTTCGCGGAGGCGCAGCGCGCGTGCGCCGAGCAGGACGGCATCCTGGCATCTGCAGAACAGCTGCACGCGGCCTGGCGCGACGGCCTGGACTGGTGCAACGCGGGCTGGTTGCGCGACGGCTCAGTGCAATACCCCGTGAACCGGCCCCGGGAGCCCTGCGGCGGCCTGGGGGGGACCGGGAGTGCAGGGGGCGGCGGTGATGCCAACGGGGGCCTGCGCAACTACGGGTATCGCCATAACGCCGAGGAACGCTACGACGCCTTCTGCTTCACGTCCAACCTGCCGG
Seq A exon
GTGCGTAGGCCTCACCCCAAGACTGGCCTCTGCTGCAACACTACCCCAACCCCGGGGCCTTCTTCCCCACCCAGCTCTTAGCGATCAGAAACAGGAGACCCCTCTCCCAAGAGTGCCTAGGCGCAGCACACACCGCCTGGTACCAACGCTGGTTGGGCCTAGGCTGGGGTCCCAGGCTGCAAAGGAGGAACTGTTCCTGGATCCCGGGGCCGAGGCCAGAGTCCTAGGCTGCATGCGGGGGGCAGTCCTGAATCCCACCGAAGCAGGGTCCCAGGAGCCGCACTAATAACCCACCCCCCACCTCACCCCCGCAG
Seq C2 exon
GGCGCGTGTTCTTCCTGAAGCCGCTGCGACCTGTACCCTTCTCCGGAGCTGCGCGCGCGTGTGCTGCGCGTGGCGCGGCCGTGGCCAAGGTGGGGCAGCTGTTCGCCGCGTGGAAGCTGCAGCTGCTAGACCGCTGCACCGCGGGTTGGCTGGCCGATGGCAGTGCGCGCTACCCCATCGTGAACCCGCGAGCGCGCTGCGGAGGCCGCAGGCCTGGTGTGCGCAGCCTCGGCTTCCCGGACGCCACCCGACGGCTCTTCGGCGTCTACTGCTACCGCGCTCCAGGAGCACCGGACCCGGCACCTGGCGGCTGGGGCTGGGGCTGGGCGGGCGGCGGCGGCTGGGCAGGGGGCGCGCGCGATCCTGCTGCCTGGACCCCTCTGCACGTCTAGGCTGGGAGTAGGCGGACAGCCAGGGCGCTTGACCACTGGTCTAGAGCCCTGTGGTCCCCTGGAGCCTGGCCACGCCCTTGAAGCCCTGGACACTGGCCACATTCCCTGTGGTCCCTTACAAACTAACTGTGCCCCTGGGGTCCCTGAAGACTGGCTAGTCCTGGCAGAACAGTACTTTGGAGTTCCCTGGAGCCTGGCCAGCCCTCACCTCTTCTGGATAGAGGATTCCCCCAACTCCCCAACTTTCTCCATGAGGGTCACGCCCCCTGAGGACCTCAGGAGGCCAGCAGAACCCGCAGGCTCCTGAAGACTGGCCACGCCTCCTGAGACCACTTGGAAACAGACCAACTGCCCCCGTGGTCGCCTGGTGGCTGGACCCCCGGGATTGACTAGAGACCGGCCGTACACCTTCTGCATCTCACTGGAGACTGAACACTAGTCCCTTGCGGTCACGTGGGACACTGGGCGCCTCCTCCTCCCCCTCCTCCTCACCTGGAGAGACTACAGGAACTTCAGGGTCACTCCCCGTGGTCACATGGAGGTTGTGGGCCGAGGCGCTTATTTTCCCTTATGGTGACCTGAGTCCTGGAGACTCCCATTCTCCCCCTCTCCCTGAGAGTCCCCTGCAGTTTCTGGGTAACAGGGCACACCCCTCTAGTTTCATGGGCGAGCACCCCCATCTGCCACCTCAGACTGACACACAGCCAGCTGGCTCACTTACTGGGGGCCACGTCCCACCCCTCAGATATTTCTTTGAAGGGAGAGCAAACCCACCCTGTCCTCTGACGTCCCTTTCCCAACTGTCACCAAACAGACCATCTTCCCAGGCCTGGGGACCGGTAAGATCCATGTCACTAGTTATGCAGAGCAGTTGCCTTGGGTCCCACTGTCACCAAGGCAACCAGTCCTGCTGCTACCTGTCACCTAGAGTCACACACCCCTTCCCTCATCAGGCACACCCATGAAGACAGTGCCTCCCTCCTCCAGCTGTAACCATGGATACCACACATTTCTCATCTCATTGGCCCCCACCCCAGAGACCTCCACCTCAACTTCTGGCTGTCCCTACCCTGACTCACCGCCATGGAGATCACCCTCCCCGAAGCTGTCGCCAGGGTGACCCAACATCCAGTTCTCCGGCTCTCACCATGGAAACAAACTGTCCCTGTCCCCAGGCCCACTCCAGTTCCAGACCACCCTCCATGCTCCACCCCCAGGCGGTTTGGACCCCACCACTGTTGCCATGGTGACCAAACTCTGGAGTCCGAGGTAACAGAACACCTGTCCCCCTAGGCTTTTCCTTGTGGACAACGGGGCCCTGTTCACCAAGCTGTTGCCATAGAGACTGTCAACGTTGTCCTCATGACAACCAGACTTCCAGTTCTCAGGAACTTCTCATTGTGGGCCAGAAGTCCTGGGTGCCTCCTACTAGGGCTACCCTACTGCACCCCATCAGGGGCCTGATGGCTGCCCCTTCCCCAGACAGGGCTGGACTTCTGGAGCTGCTAAGCCACCCTCCGTTTGCACGTTAACTCTATGCCGGATAGCAGCTGTGCACGAGACAATCTTGCAACACCCGGGCATGTTTGTCGTCGTCCTACAAATGAGGAAACCGAGCCTATGGCGTGCCCTGGTCTGTTGAGATATGCAAGCACTGAGCTCCTCTTTTGTCCTCTGAGACCCCATCTCCATTCTCACCCAGTTCCTCTCTCCTTCCCTGACCCCCACCCACATTTCCCTCCTTAGAGATCCAGGAGGGATGGAATGTTCTTTAAAATTCAACACCCACCAGGCTCTAAGCGGCGATCTGTGCTAAGAGGTCAGGACCCAGCCGAAGTCCTCGGCGTTGACAGGCAGCTGGGGGGACATGATCCATGGACAAGGCCATCCCGGCCGTGGGAGACCCCAGTCCCGAAGTCTTGCCTGCAGGAGTACTGGGGTCCCCCTGGGGCCCTCTTTACTGTCACGTCATCTCTAGGAAACCTATCTCTGAGTTTTGGGACCAGGTCGGTTTGGGTTTGAATTCTGCCTCTTCTTGCTCACTGTGTGACCAAGTGACAAACTCCTTCTGAACCTGTGTTCTCCCACTGTACCAGGGCTGTTCTGTGGTCCCCGTGAGTGCCAAGCATACAGTAGGGGCTCAATAAATCCTTGTTTCTTTTGATGAATGAGAAAA
VastDB Features
Vast-tools module Information
Secondary ID
ENSG00000187664:ENST00000291481:4
Average complexity
IR
Mappability confidence:
NA
Protein Impact
Alternative protein isoforms
No structure available
Features
Disorder rate (Iupred):
C1=0.071 A=NA C2=0.015
Domain overlap (PFAM):
C1:
PF0768612=V-set=PD(1.7=1.8),PF0019312=Xlink=WD(100=94.6),PF0019312=Xlink=PU(0.1=0.0)
A:
NA
C2:
PF0019312=Xlink=WD(100=70.2)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Other assemblies
Conservation
Chicken
(galGal3)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
GGCCGATACAAGCTGACCTTC
R:
CTCCGGAGAAGGGTACAGGTC
Band lengths:
352-666
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