HsaINT0138809 @ hg19
Intron Retention
Gene
ENSG00000135870 | RC3H1
Description
ring finger and CCCH-type domains 1 [Source:HGNC Symbol;Acc:29434]
Coordinates
chr1:173953637-173962210:-
Coord C1 exon
chr1:173961893-173962210
Coord A exon
chr1:173953758-173961892
Coord C2 exon
chr1:173953637-173953757
Length
8135 bp
Sequences
Splice sites
5' ss Seq
CAGGTAGGA
5' ss Score
9.79
3' ss Seq
TCTTTTCTTTTGGCCTCCAGGTC
3' ss Score
10.82
Exon sequences
Seq C1 exon
CTTTTTTTCAAAGATTTTGATTCCAGTGGAATCTTTGCTTTAGATTTGTGTGTGTGTTTGTGTTCGTGAATTGTAACTCCAGAAGCAATGCCTGTACAAGCTCCACAATGGACGGATTTCCTCTCCTGCCCAATTTGCACTCAGACTTTCGACGAAACAATTCGAAAGCCCATCAGTTTGGGTTGTGGCCATACTGTCTGCAAGATGTGCCTGAATAAACTCCACCGCAAGGCTTGCCCATTTGACCAGACCACTATCAATACAGACATTGAGCTCCTCCCTGTGAACTCAGCATTGCTGCAGCTCGTGGGTGCTCAG
Seq A exon
GTAGGATGGGTGACTTAATACTTTTAAATTTCTCCCTCTCTCTCTCTCTCTCTCTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTTGTGCGTGTTTTTCTCCTGAGAGAAACCTGTTGAATTAAAATTGGGTAACATTGCCTTCTATTTAAATAGGTATAATTCTGTTTGGTACTGTAAATCCTTTATTTCAGCATGTTAGATTTATTGTGGTAGTCCAGTGCTTTTTAGTCATAGTACAGTAACATCCATTTAATCTTGTCAGATATTCAATAAACCTAGCTATGCAGATCGCTAGAGAAACCTAAGGCCGGGTGTGGTGGCTCATGCCTGTAATCCCAGCACTTTGGGAGGGCCAAGGCGGGTGGATCATTTGAGGTCAGGTGTTTGAGACCGGCCTGGCCAACATGGTGAAATCCTGTCTCTACTACAAATACAAAAAAATGAGCTGGGTGTGGTGGTGTGTGCCTGTAATCCCAGCTACTTGGGAGGCTGAGACACGAGAATTGCTTGAACCTAGGAGGCAGAGGTTGCAGTGAGCCGAGATCGTGCTGCACTCCAGCCTGGGTGACAGAGTGAGACCCTGTCTCAAAAAAAGAAAAGAAACCTAAGAGGTAAGTCATAAGGACCTTTTTTAACATTGAGAAAACTATTGTTCATAAAACCACTGCACTTTACTCAGTAGAGAAGGTGCAGCTGCTTCAGGCAGTTTTACTCAGTAGACATTAACTGAAATGAAAGATGAGAAAGGTGACAAAAACTATAGCACAACATTTGGGAACCATTAGAACACACTTAATGCTTTATAAACCTAAAAATGGTTGGGATGGTAAATTTTGTGTTATGTATATATTATCACAATAAAAAAAATAAAATTTTCCCAAATTTTCCTTTCATCTAAAAGGAAAAAGAAAAAATAAATTAGACTTTAAAATATATAATCACCAATTTCTCCTAGGAATGTAAGTTTGACTTAACATCTGCAAATCAATTAATGTAATTCACTATATCAGTAAAAGTTGCAAAATTGCACACATATGATCATCTCAATAGACACAGAAAAAGCATTTGGCAAAATCCAATACCTTTTCATAATAAAAGCACTGAAACAACTAGGAGAAAAACTTCTTCAACCCAAAGGACATGGATGAAAAACCCACAGCTAACATACTGAATGGTGAAAGACTAGATGCTTTTTCTGTAAGATCAGGAACAAGTCAAGGATCTCCACTCTTAACTATTTCTGTTCAACATCATACAGGACCTTCTAGCTAGGGCAATTAGGCAAGTAAATGAAACCGGTGACATTCAGATAAGAAGTAAAAAATAAAAACAATCTCATTCACAGATGACATGGTCTTATATATAGAAAATGTTAAGGAATCTGCAAAGGAAAAGCTATTAGAAACAAAAAACTAGGCAGAGTTGCAGGATATAAGATGAGTATATAAGTATCAGTTGTCTGAAAAAGCAAAAGTCTTTCTAAGGTGTAAAAATGTGTTTACAGTGTTTCATAATTTCTTTCTTTCTTTTTTTCTTGCTCTGTCACCCAGGCTGGAGTACAGTGGTGTGATCTTGGCTCACTGCAATCTCTGCCTCTCAAGTTCAAGTGATTCTCATGCCTTAGCCTCCCAAGTAGCTGGGATTACAGGTGTGCACTACCATACCCAGCTAATTTTTGTATTTTTAGTCGAGACAGGGTTTCGCCATGTTGGCTATGCTGGTCTCAAGCTCCTGACCTCAAGTGATCCACCTGTCTCGACCTCCCAGAGTACTGGGAATACAGGCATGAGCCACCGTACCCAGCTAGTGTTGCATACTTTCATCCACAGTATGTTAATAACAGTTTTCTTAGGCCAGGCACAGTGGTTCACGCCTGTAATCCCAGCACTTTGGGAGGCCGAGGCGGGTGGATCACGAGGTCAGGAGATCAAGACCATCCCGGCTAACACAGTGAAACCCTGTCTCTACTAAAAATACAAAAAGTTAGCTGGGCGTGGTTGCAGGCGCCTGTAGTCCCAGCTACTTGGGAGGCCGAGGCAGGAGTCCCAGCTACTTGGGAGGCCGAGGCAGGAGAATGGTGTGAACCCGGGAGGCGGAGCTTGCAGTGAGCCGAGATCGCACCACTGCACTCCAGCCTGGGCAACAGAGTGACACTCTGTCTCAAAAAAAAAAAATAAATAATAATAATAATACTTTTCTTACACACGTAAGAAAGACTGTCTGGTACATAGGCCCTTAATAAAGACTGTTAAATAAGTAATATATATGTTGTATTTCTATACGCTGGCAATGGACAATCTGAAAATAGATCAATTTCATCTACAAGAGCATAAAAAAAATTAAGAATATATTTAACAAAAGAAATGTAAAATTAGACCGGGTGCAGTGGCTCATGCCTATAATCCCAATAGTTTGGGAGGCCGAGGCTAGCAGATCTCTTGAGGCCAGGAGTTCCAAGACCAGCCTGGCCAACATGGTGAAACCCCGTCTCTACCAAAAAAATAGAAAAATTAGCCAGGTGTGAAGGTGCCCACCTGTAATCCCAGCTACTCGGGGCTGAGGCATGAGACTCGCTTGAACCCAGGAGAGGGAGGTTGCAGTGAGCTAAAATCACACCACTGCACTCCAACCTGGGTGACAGAGCGACTCTGTCAAAAAAAAAAAAAATGTAAAACTATATTTTGAAGACTACAAATCGTTGTTTAAAAGTAGCTTAAAACTTGAATAGGCCGGGCGCGGTGGCTCACGCCTGTAATCCCAGCACTTTGGGAGGCCGAGGCGGGTGGATCACGAGGTCAGGAGATCGAGACCATCCTGGCTAACAAGGTGAAACCCCGTCTCTACTAAAAATACAAAAAATTAGCCGGGCGCGGTGGCGGGCGCCTGTAGTCCCAGCTACTCGGGAGGCTGAGGCAGGAGAATGGCGTGAACCCGGGAAGCGGAGCTTGCAGTGAGCCGAGATTGCGCCACTGCAGTCCGCAATCCGGCCTGGGCGACAGAGCGAGACTCCGTCTCAAAAAAAAAAAAAAAAAAAAAAAAAAACTTGAATAAACATTTACTCTATTAACTCAAAATGGATCAAAGGCTAAATATAAGAACTAAAACTACAAAACTCTTAGAAGAAAATATAGACATAAGTCTTTCTGACCATGGAGTAGGCAGTGGGTTTTTTTCAAGATGTGACACCAAAAAGCACAAGGAACAAAAGAAAAAGATAAGTTGAACATCAAAATTAAAAACTATATTTCAAAGATACGAACAATTGGCTGTTCACAGTGGCTCACGTCTGTAATCCCAGCACTGTGGGAGGCCAAGATGGATGGATCATTTGAGACCAGCCTAGGCAACATGGCAAAACCCCATCTCTACAGAAAATACAAAAAAAAATTTTTTGCTGGGTGTGGTGGCACATGCTTGTAGTCCCACCTGTCTGTGAGGCTGAGGTGGGAGCATCACCTGAGCCCAGGAGGCCAAGATGGATGGATCATTTGAGACCAGCCTAAGCAACATGGCAAAACCCCATCTCTACAGAAAATAACAACAACAACAAAAAATTGCTGGGTGTGATGGCACATGCCTGTATTCCCACCTATCTGTGAGGCTGAGGTGGCAGCATCATCTGAGCCTGATCACCTGATGGAGGCTGCAGTGAGCCTCGATCGCAGCACTACGCTGTAGCTTGGGCAACAGAATGAGACCCTATCTCAAAAACAATAGCAACAACAAAAAACAAAGATACCAACAAGAAAGCAAAAAGAACAACCTACAGAATGTGAGAAAACAATTGTAAAATCCTATTTCTGATAAAGACTTATATGTAGAATATATAAGGAACTCTTACAACTCAGTGATAAAAAGACAACCCAGTTTTTAAAATGGACAAAGAGCTGAACAATCACCTCGTCAAGTAGATTATACAGTTGGAAAATTGGCAAAATGAAAAGTAGCTCAGCAGTTTGTCTTTAAGTAATTGCAAATTAAAACAAGTGAGATACCACTACACACAAATTAAAATGGCCAAAATCCAAAACATTAGCAACACCAAATGCTGGTGAGGATATGGAGCAACAAAAACTCTCATCTTTTTGGAAATGAAAAATGGTATAGCTACTTTGGAAGACAGTTTGGCAGTTTCTTTATAAGCTTAACATAGTAGGTATTTACCCAGTTAACTTGAAAATTTATGTCTACACAGAAACCCTCACATGACTATTTATAACAGCTTTATTCATGATTGCCAAAAAATGGAAGCAGTTGAGATATCTTTTAATAGGTGAATGGATAAACAGTGGTATATCCATACAATGGCACATTGTATAAAATGAAATAATGAAAAGACATAGCTGTCAAGTCACAAAAAGACATAGATATATCTCAATGTATACCATTGCTAAGTGAAAGATACCAGTATGAAAAGGCCACATACTGTATGATTCCAATTATGTGATATCTGTAAAAGGTAAAACCATAGCAACAATAAAAGTATCAGTGGTTGCCATGGATTCAGGAGTAGGGAGGGAGGATAGAATTGGTGAAACAGTATTTCTTAGGGCAGTAAAACAGTTCTTTATGATTCTGTAATTGTGGCTATATGACACTCTGAATTTGTCAAAAACTGTAGAACTTTACAAAGATTATGGAAGACAATCTGAAGTATATGAAACAATTTCACTAAAGGGGTGTAGGAGAAAGGTAGATTGTGTAAGATTAAAGATAGAGAAAGATATTATCTATAAGCAGTGTACTCTAGTCTTTTCCCATGGGGGTACGAATTAATTCTGATACTGCTGTATGTATAATACATATTAGAATTGAACAGTTAAGTAAGTGAATGGGAAATGATTGGAGCCAGTTAACAGATAAACAAGGAGGAAGAGGTTAGAGTGATTCATGTGATAATGGATTGGAGTTGGAGGCATCAGTATGAACTCATTTTTAGCTTGATATGGATACAGATGGTTATATACAGAAATAGATATACGAGATATCTCGTGTGTATCTCGGGTTATTACAATGTATATCTCGGGTTATTACAGTGACATATTTCCTTGGTCTGTCATCTAAGATGGCCTAGAAGGAACAACACCCCAATAGTAATGTGCATACATAGCATTCATATCTTGGTTTCTAATACCATTCTCCAATAAAAGGAACCAGAGTTCCTTGGAGAAATGGCTAATTCTAAGACTGGGACAGGAAATACACGAAATGAGTCTGGAGTAGCTTGTAGCACTGGAAAGTATAGAGAAGTATTCAAAACACACACAGACACATACACAGAGTAATGGGGGCTATATCAAAGGCACACAGGAGCCAACTGAAAGAGCTCTCAATGGCCAAAGCTAAAACAGTTTGAACAACAAAATAAATGGAATTGGATCATAACCCAGGTATAAGATAAATATCCTTGAGTCTACACGATACAATTAAATGATTGAATAAATAGATGGAAGAAAGAAACAAATCTCCCGTGCAGAATTCCAAATTAATTACATAGATATTCTGCTCTCAAGGATGTAGAATGTGTGTGGGCTACGCATAGTGACTCCTTCCAAAAAGTACAGTTTGTGGAGATTATGTAACTTTATAGTGGAGAAACCTGGTAAACACTGACTAAACCAGCTGTTCAAATTTAACATCAGCAATAATAAGTTGTGTTGGTGGTGTGTAGCTTTGATATGATGTGATAAAAAATGGCACTTTTCCCCTATGATCTTCCAAAAATCCATAACCCCAATATACTCATGAGAAAAATGACAGATCCTAGATCCCAGTTTAGGGGCATTCTACAACATACCAGACCAGTGCTCCTCAAAACTGTCAAGGTCATTAAAACAAGGAAAGTCTGAGAAAGTGTCCAAGCCAAGAGGAGCTTAAAGAGATATTGAAGGGCTAGCGCAGTGGCTCACACCTGTAATCCCAGCGCTTTGAGAGGCCAAGGCAGGCAGATCACTTGAGGCCAGGAGTTGGAGACCAGCCTGGCCAACACAGTGAAATCCTGTCTCTACTAAAAATACACAGAATCAGCCAGGCGTGGTGGCGCATGCCTGTAATCCCAGCTACTCAGGAGGCTGAGGCATGAGAATCTCTTGAACCTGGGAGGTGGAAGTTGCAGTGAGCCGAGATTGTGCCACTGTACTCCAATCTGGGCGACAGAGTGAGACTTTGTCTCAACTTTGAAAAAAAAAAGAGGGAGAGACATGGAGGGAGAGAGGGAGGCCAAGGTGGGTGGATGGCTTGAGCCCAGGAATTCGAGGCCAGTCTGGGCAATGTAGTGGGACCTCCATCTCTACAATAAAATACAAAATTAGCTGGGTGTGGTGGCGTGAGCCCAGATGCTGCCACGGCACTCCAGCCTGAGTGACAGAGCGAGACTCTTTCTCTGAAGACTAAGTGTAATATGGTATCCTGGATGGGATCCTGAAACTGAGAAAGAACATTAGGTGAAAACTAATATCTGATTAACATGGATTTTAGTTGTTAATTATGAATATGTTGATATTGGCTCATTAATTTTAACAAATGTACCATACCAGTGTAAGATGTTAATAATAGGGGAAATTGTTAGTCGAGTGTGGTGGCTTGCTCCTGTAGTCCCAGCTACTTGGGAGGCTGAGGCAGAAGAATCGCTGGAACCCAGGAGGCGGAGGTTGCAGTGAGCCGAGATGGTGCCACTGCACTCCAGCCTGGGTGACAGAGGGAGACTCCGTCTCAAAAATAATAATAATAATAATAGGGGAAACTGAATACAGGATAATGAGAATTCTGTGTACTATCTTTGCCATTTTTCTGTAAATCTAAAACTGTTCTACAAAATAAAGTTTACTAGGCAAAATGGGCAAAGGATCTGAATAGATATTCTTCCAGAGAAGATATACAAATGGATAATAAGCATATGAAAGGATGGTCAACATCATTAGCTATCAGGGAAATACAAATCAAAACCACAGGGAAGTGGGAGGAAGGTAGATGGGAAGAAGAGATAATTATCAAAGAATACAAAGCTTCAGTTAGACTGGAGGAATGCCTTTAGTGATCTATTGCACAGAACAGTGACTATAAATAGTAATACATTGTATGTTTCAAAATTGCTAAAAGAGTAGATTTTATTTAAAATCTACAAAAAAAAAGTGAGGTGATGGATTTGTTAATTAACCTGATTTAGTCATCTCACATCGTCACATTGTACCCCATAAGTATATGCAATTATTATTAATTTAAAATAAAATTTAGACAAACCACAATGAATTACTACTTTTCACCCAACAGGATAGCTATAATAAAAAAAGATAATGAGTAGAAGAATTATCTTTCTACATAAAATGTAGAAGAATTGGAACCCTTATACACTCCTGGTAGATATATAAAATGCTACTCTGCTTTTGGAAAATAGTTTGGCAGTTTTTCAAAAGGTTAAATACAGACTCCTAGGTATATACCAAAGAGAAACAAAAACTTTTGTCTACACAAAAACTTGTACACAGATGTTCATAGCAGCATTATTCGTAGTAGTCAAAAATAGAAACAACCTATATGTCTGTCAATGATGATTGTGTAAATAAAGTGTGATATATTTATACAATGGAATTTTATTCAGTGATGAAAATGAATGAAGTACTGATACAACCTGGAAGACCCTTGAACACATTGTTAAGTGAAAGAAGTAAGTCAGAAAAGACTATTTATTGTATTGATTTTGCTTATATGAAATGTCCAGAATAGGCAAATCCATAGAAAATAGATTCGTCTTTCCAAAGGTTGGTGGATGGTTGGGAAGAAATAAGGGGTAATTGTTAAAAGGGTACTGTGTTTCTTTTTGGGGTAATGAAAAGGTTCTAAAGTTGATTGTGGTTATGTTTGGACAACTGTGAATATACTGAAAACCAGGGAATTGTATGTACTTTAAACCAGTCAGTTGTATGGTATGTCGATTATATCTTAATTAGGCTGTTAGAGAAACAAAACAAAGGAATGCAAAGATACATGTTAATAGGAAAGATCTTTTGAAAGAATTCAGTAAATTTAGTGGGCGTTTTGATGTTACCAGTGTCAGCATTATGAGTGCATAAACTATACTAAATAAAACAATTAATGAATTGAGCACTCATACAGATCTTTTCTTTTGGCCTCCAG
Seq C2 exon
GTCCCTGAGCAGCAGCCTATTACTTTGTGTAGTGGGGTTGAAGACACAAAGCATTATGAGGAAGCCAAGAAATGTGTAGAAGAATTAGCATTGTACTTAAAACCGCTCAGCAGTGCTAGAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSG00000135870-RC3H1:NM_172071:1
Average complexity
IR-S
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion (1st CDS intron)
No structure available
Features
Disorder rate (Iupred):
C1=0.000 A=NA C2=0.000
Domain overlap (PFAM):
C1:
PF0136316=FYVE=PU(71.0=92.2),PF052906=Baculo_IE-1=WD(100=68.8),PF134451=zf-RING_UBOX=WD(100=53.2)
A:
NA
C2:
PF0136316=FYVE=PD(27.0=65.9)
Main Inclusion Isoform:
NA
Other Inclusion 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:
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)