HsaINT0139677 @ hg38
Intron Retention
Gene
ENSG00000131378 | RFTN1
Description
raftlin, lipid raft linker 1 [Source:HGNC Symbol;Acc:HGNC:30278]
Coordinates
chr3:16315856-16323457:-
Coord C1 exon
chr3:16323376-16323457
Coord A exon
chr3:16317233-16323375
Coord C2 exon
chr3:16315856-16317232
Length
6143 bp
Sequences
Splice sites
5' ss Seq
AAGGTAAGA
5' ss Score
10.57
3' ss Seq
CCATCCTTTCTGATTTCTAGTTT
3' ss Score
7.51
Exon sequences
Seq C1 exon
CGAGGGGAGTGTATCCACCAAGCAGATTGTCTTTCTTCAGAGACCTTGTCTACCTCAGAAAATCAAGAAGAAGGAATCGAAG
Seq A exon
GTAAGAGACTTTGATGGCCTTCCTAGGTTTTCCTCAGCAGGGCTTCATCTTCAGTGGATTTTCTGCAGCATTTGAGGGGGCAGCCTGCTCCAGCTTCCAAGGGCTCGCAGAGCCCAAGGAACACCTGAGCCCCTGGCAACCCGAATCACATCTCAGGCTGCTAAAACGGGACAGCTGAGGGGACTGGAGGGCCTTGTCTGCCATCGTCCTGCTGGGCCGGCCAGAAGGATGGAGGAGAGAGGCTCTTCTGGAGGCTTCAGCCTGCTAGATATTCCCACTAGGATGAAAAGAAGGGCACGAAGTCAGCTGCAGCCTGACCATGGGGTGGGGATGGCTCGAGCTCATGGCCAGTTTCTTTGTGTCTTAATCTCATTATCAGCTAGTTGGAGCTCTGGCCTGCCCTGTTAAGATTCCTTAGGACATTAAAAGTGTGGGGATCTAAGCAGAGACCCTGCCAAAATTTCTTCATGACAGGCCTAGACCCAAAGGCCTCTGTGTGACAGCTGGTGATGCTAGCTGTAGCCTGTGGCAGCAAGTCCTCAGGCCAGGCTGTCCTCAAGAGATCCCCAGGGCCCTTTTCCCCCTCTCCGGACTCTGAACTACCCTAGAAACAGTCGCACAGAGACTGGCCTTCTCAGAGAGTCTTCTCTGTGATTCCTGAAGGTTGAGCACAAGGGCTGTACGAGGTGCAAGTGTCGGCAACCCTTGTGCCAGATGATTCTGATGCTTCCCACCCCACCCTGAGCAGCCTGTGGTGCTTTTCCTGAGGACATTTTCACCAGTTGCTGGGGAAGAGGCCAGTGAGTCGAGTGGACACACCAAAGCCTGAGTCAGGCATCACCTGGATTCAGCTCACTGCACCTTTGATGGCTGAGGCCACATTCTCGGCAGGGCCTGCCTGACCTGCTCGGCTCCTCACTCCTGGCATCACTCCTGCATTCCTCACGCTTGGTTCCTCATGTTCTTTGGACACAGAGCCCTGGGAAGGAGCATCAAGTAAATGAACAGATTGGAGCAGCCCCTCACCAGCCAACAACTCCAGGGGGAGCCCACTTGTGGAAGGAGTGCCAAAGCAATGGTGACTTGAAGCCAGATGGGCTGGAGTGTGGAGGAAGGTCTTTCTCCAGGCTCTGAAGGTGTAATGTGACAGGTGACGGCACAATGGACCAGAAGGGAACTGCCAGCCCACCATCAACCACCAGGAGCAGGCAGCCACCAGCTGGAAGATGGATCGGCTGCAGAGCGCTGTCAGTTTCAGCTCAGCCACAGGCTCACGGGAACTGCATGCATTCAGCAAGTGCAACATTCAACACACAGCACGCAAAGGGCCCCTGTCAGATGCTGACAGACACCCGCTGCAGCCTTACAGAGGGAGATGGTGCCACCTTTGCCTAACAGGTTCCTGGTGGTGGGGCACACAGATTCCAAAGGAGAGACATGTGGTTGGATGTTGGTGTGAAGGTCATGGCATCGCATGCAGGGGGACAAGTCAGTGGAAACTTGAGTCGGCAGGGAGACTTTAGAGATAGATTTGTAAAAGCTGCTGTAATAAGGTTGAACTGACTCTCCTCAGGGAAAATTCAGAGAGGATGGGACCCACTGTTTTTTCAGTCAGTAAAAACTTCTAATCCCAAGCAGCTGTACTCATCTGGGTGGACTGCTTTCTCTTTCCATGTACCTAATTATTTCCTGCCTCATTCCAAGACTGTAGGTGACTGGTGTGGAGCACTTGTTCTACACAAGACCCTCTGGGTCACCTCACAGATGGGAGTCCTCCAGAGAGGGGGGCTTCACAGCCAGACTCCTTGGAAGAATCTTCTGCACTGGGTGTCCCCTCCTCACTCCTCAGCTGACAAGGGTCAGCGTCCTACTCCCACAGGCCTGTGTCCCCTGGTGACCGAGAGTCACTCCATCTAGTCCTCATCATGCCTGAGCTCTTGCAGCCCGGATGTTGGGACCACCCCCACTCCCTGAAGCAGCTTTTCTCTTGGTTCTTTCCCACCTCATTCTCCTGGTTTCCCACTAAGTTCCTCAGGGTTCAGACCCAGCCCCATTTCTCCCTTCACTCTTGCCTCTTCCTTAGAAAATCTCCTTCACCACCTCTGTGCCAATGACCATTCCGCCTGCATTTTCAGCCCTCACTGCACCCCAAGACTCCAGCTCCATCCATCCTGTGGCTCGAGGAAACCTATGACTGTCCCCCTCCCCATACCTCGCCCACCTGGCCAACCGCCACCCTATCTAGAGGAATGGCATTGCACCTTAGGGGCTATCCCTGCTGACCCTCCCCTCTCCTTCCCCTATATTCAATCTATCCTTAAGACCCATCTGTGTTAGGTCCCGGAGGCTCTGGAATCCCTCCACTTCTCTCTACCATCACTCGCCTCAGCTATTCTAATCTCCTAATAATAGATATCCCCTTCAAATAGGTTCCCTATTCAGAGCCCAAGTGATCTGTTAAAAAGGGAACTTGAATCCTGTCATCCCACTGCTCAAAGGAGTTCTAGTTTTGTATGACTCTGAAGACAAAGATGGAAATCAGTACTGTGGCCCTCAAGGCCCCAAGGGATCTGGTCCCTCTTACCTCCTCTGCCAGCCTCCCATTCTCTGTGGCCTCCAGCTCCTCTGTGGCCTCCAGTTCTTCCGTGTCCCCTCTGCCAAGGACATTCTCCTCCTTTCTAGCTCTACTCGAGCATCCTTTTCTCAGAACAGTGCTGTCTCCTTTTATACCAAACCAGACTCCTTTGTACTACCCTGGAAAAGAACCACGTTCTTCTCCTTCAGAGCTCTCCTTTGGGCTTTTAGTTATTTGTGATCATTATTTTATCCTTCCCAGGCAGAGTCAGACATAGTCTCCACAAGAGCAAAGACCTTTTTCCTGTGTTGTGTACCCAGATTTTAGTTGGTGCTCAACAGATACTTGTCGAATCAATGAATGAGTAATCAGCTTCTTAGCGAGGACACACATAGTATGTCTAGCATTAAAACTTAAGAAAAGAAACTGCAAGATTGGCACACCGAGGATGTGGCATATTTAGTCTTCTTTTAATCAGCAACATGGATAGATTTTTCTAATCAGGACTTTTCAGCATTGGAAAGAAACCTCTGTGTACGTGCGTGTGATTTTCAAGGCAAATATTAAACTTCTTCAAAGGGAGTAGGTGATTTCTACAACTCGGGAAGACTTCCTTCCAGCTAAACTACTTGAAGTGGACACATCATGGGCAGTTTTTAAAATGTGCAAATTAAATCCATTGGCTCCTGCTGACATGGAACTCTGGACACACACTGCTGTAAAGTGAAGGATTTCTTTTTTTCTTTTAGACAGTTATTTCTGAATTGGGCGGCTAATTGGATTTGGTGACACACCCAACTGCCACAGATGCTCTGGCTTGGGAAGGCCCCCAACTCAGTGCAACCTGTTTTATCTGCGGCTTGCTGGTTAAGCTCAGAGACTCCCCCGGTCCTACTCAAAACCTGGAGTCCATTCCCCAGGCTGGACTTGCCTGCCTTTAAGTGGTGTGGATGTCAGAGCTCACCTCAGAGGCTCAACTGAAATCTGGCACAGTCCAGGCCTCCTCTTGCTTTCTGAGACGTCTCCTTTTTGAATTGTTGGGATCTGAAACAGTTTTTGTTGTTTGTTTTCTACCATTTGTGTTCTCGTTTTGTATTATATCAGCAGATCAACAAGATGTGATCTTCTACAGGAAACTGGATGTGGCCAGGCATCCAGGGGAAACTATGGAAGCTCTGTTATTTAGCAAGAGCAGCCCCGGAGAGAGTATCTGGGCTCATATTAGATGGAAGGTCTAGCACGTGGTGGAATTGTCCTCAGTTGTACACTGCACAACAGCAGAGGGCGCTATTCACATCAAATACAATATGAATGGGGCCCTGGAGGTGTGCACCGCAGCCCTGGAGGTAGAGACAACCATTTTAGAGATGAGTAACTTGAAACTCAGATTCATAACCTGCCTAAAGACTGACAGCTAATGAGTGCCAGCACTAGGATTTGAACCCATACTATAATGCTTTGACATTTTAGCACTTAAGGCCTCTTAGCCAAAACAATCACCACTTTTTTGGCAACAGTAAAACTTCCTCTGACTTCCCTGAGAGCCAACTGCCTCTCGGAGTACTATACTACACAGGTAGGCTTCACTGGTCCTTTTCTAAAAACACGTAAAATGATATAAAATGTGAAGAGGCTCTGACTGTTTTGGAACATCCATTAAAAAAAAGGAGAGACTCTTACATTTGGGCTGGAATTAAAATGCAACGGCAGCTGCCTAACACAGGGCAGCAGTTACGAACCATAACACGGTGCCTGGAAACTATGGAGGCTTGGTGGAGGCAGCCACGGTCATGCTGAGGGCTAAAATCAGGGGCCTCCTCTGGTGGGTTTGGAGCCTCGAGATGCCTGCCTGGCAGGCTCGGCTTAAGTAGGAGGTGGGTCTGAGACACCACTTAGCCTACAGAGTGATTCCATTATTGGGATCCTCACAGTTTGGGTGGAAGAAGCTCCACCCATCTCCTAAGGGAAGTCTGTCAGCTACAGTACGAGACATTTCAAAAGAAGTCAAAGGAGAAACCCATCCAACATTGTAAGTGAACTCATTTGGGTTTTTTGGGGGATACAGGGTGGGAAAGGACCAGATAAATGTTAAATCCTAACCTCAACATGTATTTCACTCATGTTTCTCTACTTTAATGGAACATTCCATTACCATTCTTATCTAAAAGGTGCTAAATCCAAGAATCCTATAATGTATTAAATCTCAGAATTCTGTGTTTGGGCAAATGTTTTATCTGAGGAAACAGATCTCTACCGTGGAAAACTACAAAAATGGCAGATTTTTAAACATTTACATAGCACATTTTTGGTTTTTCCTAGCAAAGCGCTCAGAATGATTTACAACATACTAAAGCCTTAAGAAATCATTTCCCACTGATGGTGCAACTGCATTCCTGGGCTCCTCTCTCTAGCCCAGCAAGAAATCATAGGAACTGAGAGCTCCCTTTTTCTCTCAATTATATAATGTCTAAGATTTAAGTGCGTATTTGGTGAAACCAATGAGATAACAGCTGAAGCACAAGGAAGTGGCCATGGTGGGAACTGAAAACTAAAACCCCACGTGCACTCTGGGCCACCGAGATGAGAAATTCAGATTGAGAAACTTGGCCGGTCAGTGACGGAGCTGGGGCTCGCTCTCGGGTGGTCTTGCTCCAGAGATTTGATGAGACCCTGGTTGTTGCCCAACTCTATTACTGGCCGCGTGACCTTGGGACTCTGAGCCCCTGACTTCCCTGTCACACCAGGAAATGCTTGGTTGCAGGTTGGGCCCCCGGGAAGCGGCCTCTGAGATTGGAAGTTTTTAGAGGGAGTTACCTTAGAACACTTGTCGGTACAGTAGCGGGCAGAGGGAGAATTTGGGCTGTGATGCAGTCACAATCCCCCAGGTTGGCTTGGAGCTGGGATGGCATTTGCGTTATCCCAAATTGGGATCAGGAAATGGGTTGTTGTATCCCACCTGGGGCAGTCATTGGTTGTAGGTTGCCCTGGTGTGACCCTTCTGTGAGGTGGTGGTCAGCAAAGGGCTATCGGCCTAGCTGGGGAGCGGGCCCGCCAGTCCTGTGGGGGGATCTGAGCGGTACAGCACAGTGTCTGCCCCATGTTCTGGGCCCTGCCTTACTCAGGTGACCTAGTGAGAGAATGCCAGCCCCGTGCCTGGTAATCCTCAGCCTGCTCAGAATGGAAATGAGTAGCTGCAGCTCTGGCTCTTACTGGGGGCAGGCCTCACATCTCCTCTCCATCCTGGCCCTCCAAATGATAGGACTTTAGGAGCCCTTTCCTATGTGGGCCTTTGGTATAGAGCCAGTCAAAAGAAATACTGCTCTGCCCCAACAGAACCTGAAATCTACATCTAAAATACACATCCTGGAAGGTGTGGTGCAGGCTCTTGGGGTGGGTGTGATGTGATAGTGTGCGATTCAAGTTTGGTGCCTGTACTGCCTGGCTGGGGGATGCTGGGAATTGTATGTCTCACTCAGACATGGTGTGGGTATGAATGCAAACAAGGCTTTGGGTGAAGCTCTGGGTTCCCGGAGGCTTGTTATTTATCCCCATCCTTTCTGATTTCTAG
Seq C2 exon
TTTCAGTGGCGATTCTCCAGAGAAGAAATGCACAACAGGCAGATGAGGAAATCAAAAGGTAAACTCAGTGCCAGAGACAAACAACAAGCAGAAGAAAATGAGAAGAACTTAGAAGACCAGTCTTCCAAAGCTGGAGACATGGGAAACTGTGTTTCAGGACAGCAGCAGGAGGGTGGAGTCTCCGAGGAGATGAAGGGCCCTGTCCAAGAGGACAAGGGAGAACAGCTGTCCCCTGGTGGCCTGCTGTGTGGGGTGGGTGTGGAGGGTGAGGCTGTGCAGAATGGTCCTGCCAGCCACAGCAGGGCCCTGGTGGGGATTTGCACTGGGCACTCCAATCCTGGAGAGGATGCCAGGGACGGGGATGCTGAGGAAGTCAGAGAGCTTGGTACGGTTGAAGAAAACTGAGTCTTGGGCAATTTGTGCTAAAACTAGGTGAGTTGCCAAACCCAAGGCATCTTACCAACAGCTGGTTTGGGGGCTGGTTTCCCTGGTGTTGTGTGTTACCTACCCTTTGGCTTGGCTTGACCTCTCCTTGTGAGCTCACCTGAGCCCTCCCAGGGCCAGGTTCCTGACAGTGTTGGTTTTTGCACATCCACTGGAAAGGTGTCATTAATGACCCAGTGTTAGAATGCAAGAGGTCAGGTTATTCTAGCCCTCATGGCTGAAGGCCCAGTCCTGGCTCCACCACTCCTCCAGCCAGAGGGTCTGGACCATCCAGTGCCTGTCCTCGCCACAGGGCCTCCAGGGAGCATTCGGGTCAAATCCATGGACACCCTGGGCTACAAACCAAGGCTGCTGTTCATCCCACATCGTGTGGGGCAGTGTCCATCCCCTGCAGCTACTTGGTGACTTAACAACTCCAGGAGCCCTGTCAGCTGCCCTCCTCCACCTAAACCCCTTCGACTCTTCTGCTTTGACAAAGAAAATGACATTGGGGAGGGGAGGTGCTCCGCCTCCCAGCTTTTCTCAAAATAGTCCTATAGATACTGGTAATCTGGAAATGAAGAAGTAATTCTGTCTCTGCACCTACTTTTGCAGAATGTTCAAGGAAGTATTCTGTGTTAGTATTAATGCCAAAAAGTTGTTTTTAAAGGTTTTGTACTCAGCACATCATACAAACCACATTACTTCTGTCACTTCAGGGCATCGGGACTGGCTGGCGCCCTTGTTATGTGCTATTTTAATCAGTGTAACATTGGTCAAGTTGTTACCCATGTATGCTGTGTTTATCATGTGTATATCGTCCAGAAAGTATTAAGGCTTTAGGTAGATGCAACTGGCGAACCTTGGAGAGGGAATGCTGATTGTCTTGACCAAACCCACAGCCTGTCTCTTCTCTTGTTTAGTTACTTACGGCAATAAATCATCTATGAGTTA
VastDB Features
Vast-tools module Information
Secondary ID
ENSG00000131378:ENST00000334133:9
Average complexity
IR
Mappability confidence:
NA
Protein Impact
Alternative protein isoforms
No structure available
Features
Disorder rate (Iupred):
C1=0.000 A=NA C2=0.957
Domain overlap (PFAM):
C1:
PF152501=Raftlin=FE(30.7=100),PF137831=DUF4177=PD(32.6=53.6)
A:
NA
C2:
PF152501=Raftlin=PD(35.5=28.1)
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:
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
- Genotype-Tissue Expression Project (GTEx)
- Autistic and control brains
- Pre-implantation embryo development