HsaINT0042214 @ hg38
Intron Retention
Gene
ENSG00000121904 | CSMD2
Description
CUB and Sushi multiple domains 2 [Source:HGNC Symbol;Acc:HGNC:19290]
Coordinates
chr1:33514009-33519677:-
Coord C1 exon
chr1:33519465-33519677
Coord A exon
chr1:33516571-33519464
Coord C2 exon
chr1:33514009-33516570
Length
2894 bp
Sequences
Splice sites
5' ss Seq
CCGGTGAGC
5' ss Score
8.69
3' ss Seq
TGTGATCTGTTTGTTCCCAGTTC
3' ss Score
9.25
Exon sequences
Seq C1 exon
GAGAAGACCCAAAGTTCCTTTCAATGGCTATGCTGGCCACGAGAACACCAATGTTCGGGCCACATTTGAGAACCCAATGTACGACCGCAACATCCAGCCCACAGACATCATGGCCAGCGAGGCGGAGTTCACAGTCAGCACAGTGTGCACAGCAGTATAGCCACCCGGCCTGGCCGCCACCACCGCCACCGAGAGCCCCGCCTCCAGCAGCCG
Seq A exon
GTGAGCAGGGGTGTGGGAGGAAGACAGGCCATGACAAGCACAGACAGGGACCTATGCGTGCCAGGGGCTCCACCCAACGGAGTCGCACACACCACATAGACACACCCAGTAAGAGGAGAGCTGTGCATTGAGCATCATTGTGTAACAGGCACTGAACCAGGCCCTTTGTGGATCTAATATATTGAATCCCTGCACGCCCTGTGAGGTAGAAGCTTGTGGGAGCCCCATTACAGATGAGAAAACTGAGCTGCATAGAAACTAACTTGAGCAAGGTCACACAGCTCAGAAGGGGTGGGGTCGAAATCCAATCCCAGGCTGACTGGCTCCAGAAACTGCTCCTCACCCCTGGGCTTGGCAGAACATCGGCATGTACTAGTCTGTTTCTCTCTAGAGAAACAGAACCAACTGGATATATACATCCTCTGGGTCGAAGTCAAGCCCTGGAGATCTGTAGAGCTATACAGAGATGCACATATATCTGTGTATATAGGTATATTGTGTATATATATACATTCATACACTATAAACGCAATACATATACCCCATATCAAGATATATCCATACCTATCCATCTATATATAGATACGCATCTCCGTAGAGCTATATGTAAATGTTATATAGAGATAGAAATATAAATAAATATATATTTAGAGAGAGAGATTCATCTAAGGAATTGGCTGGCAAGGTGGAAATCTAAAGGGCAGGCCAGCAGGCTAGAAATTCCAGCAGGAGTTGATGCTGTCATCTTGAGTCCAAAAGCAGTCAGAGACGGAATTCCTTCCTCTTTGGAGCACCTCAGTCTTTTTCTTAAGGCCTTCAGCTGATTGAACGAGGCCCACACACATTATGGAGACTCAAAGTCTACTGATTTCAAAGTTAATTTTATCTAAAAAGATACCTTCACAGCAATATCCAGATTGGTGTTTGACCCATCAACTGAGCACCATAGCCTAGGCAGGTTTACTTACAAAATTCCCCACATTGAGCACAACAGAGGGGAGGAGCTCCCGGAAATATAGACAGGGGGCAGACACACCCACACGTGTACACGGTCATGCACACACACACACACACATACGCATACATGCACACAGGCATGCATCTGACAGGCCCACTGGGAAGGAACTGATGAATCTAAAAGGCACTGCCTCTTCCTCACTGTGTCCTCCTTCGATGACACCCTCACCTCTGGGACCTATGACCCTTCAGGAGTTGCCCCAACACGATGTCCAAGCTGCACCCCTCTGAGAACTGTCTTCTCCCACACATCCCGCTTTCTGGGGATAGGCAGGTGCCCCCTCTCAGGTCCTGTGCTGAAGGACTCTGGGGAGAAGAGTCACAGAGCCAGCCAGGTAGGGATTCCCAGTGAGGGCGGTGGAAAATCCGCCAAGTGGGCCACCAGCCAAACCCAGGGCTAGTGTTGCGCTCCCTCCCCACGCTCCTGTGCATGGCCGCTCACGTGGCAGATTCTCCCAGCCACACACAAATGGCAGTGCAGCGAGGAAACAGGCTTTTATGAGGGTGCCTGCAAAGGCCACCAACAGAGATGGTGGGGACAGTTCCTGCGGAGGGGGTTACAAGAGCAGCAAATGTCATTATCACTGCCCAGCCCCTGACGTGCTTTACTCCCTTTCTGCCTCACAACTCCTGGAGGATTTCACAGTTTCAGCCTGAGTCCCAGATGGTGAGTGAGTCAGGGACTCAGCAGATGCAGCTCCTGAATACAAACAATTTATGGAAAGAGCTTTTCCCCATCTTTTTACGTCTCTCCAAAACAAACATTTAAATAAGGGTTCCCCCTTATTCCAGTGGGATTGTTTTAGCATGCCAAAATTACTCCTCAAGTTTCATCTGTATGCCCAATCTTTATTTTTTCCTTCTCAGAACTCTTATCAATAGAAGGCAAAAGAGAAAAAGAAAAATCCCCTCTGATGATGTAAATCGGGGCTTGGAGATGATCAGTGATGAATCTGATTCACTGCATGAATTATTGAACAGTGTAAGAAAGAAACAAGAATGCCGCTGACCTCCACACAGTCACTCTTGCTCCACACCTGGGTTCTGCTGGGTTCCAGGTGCTGGTGTGCGCCATGCTGTCACCTCCGGGTCGGCTGGGGTTGGTGGCTCCACATCTGGCCAGCCCTCAGCATTGGCCCCTTGCCAGCAGGCTCTGAACCCACTGCCCAGCCCACAGGTCTCCAGCAGGGCCCCTCTGACCACTTCTGCCCACAGCTGGAGCATAAAGAAAGCAAGAGCCACCCTGAACAGACACACACACATTGCAAATGAGTGACTAGATGGTAATTTTTTTTTAAATAATGCCAAGGAGAAAAGCTGAAATTAAAATAAACACCCTACTAAGGAAGCAACGAGGCCTGTGCGGTCAGTGAGTAACAGGGCGGGGGAACAGGGCTGTGTGATGATGTTTGCCAACCCTTCCTCCATTAAAAAAAAGTATCAAAAATGAGATTTCACAACTGTGTCACTACAAAAATGAATATAATCCAGCCTGGATTCTTTATTACAGAGCCATTATTATCCTAGTCATTTTTTTTTTTTCATCTGATTTTGAAAGAAACTAAAATTAGAATGTTTTCCTGGGTTCCTAAAAGTATGGTGGCCCCCAAGCACTGGGCCTCCAGGTCTAATGGCGAAGTTGGCCCTGCAAGGGAAAAAGACAGAAAAATACATGTTCTGCTGCACGTATTCCCTACCTACCCCCATCCCCAACCTGGGAAGATTAAAAATCAAAGTGAAGATTGAGGTGACTCATCTCTTTCCCGCTTGTGCCTTCTTTTCTTTGCCGCTTTGCTTTTCCTCCTCTGCTCCCGGCCCCTCCCCTCCCACTGCCTCTTTTTTCTTTGCAAACTCAGGTGTGATCTGTTTGTTCCCAG
Seq C2 exon
TTCCCCAGGGGGCAGGAAGTAGGCTCCCCTGAGCACAGTGCCCAGTGCCCATCTTCGTTCGTCTCCTTGCCTGTGTCTGCTACTGCTGGGACTCAGGCCCTCGCCCTGCCGCCATCTATGCCAGTTACCCTGGAGAGGACTCCTGCCGTGTCCTGAAAAGGCAGAAAAGGAAGAGGGGCTGCAGACAGAGGAAGAAAGTTTATGGATTTAAAATAGCAAAGCAACTTGTGGATCTGTGTGTGTGTGTGTGTGTATGGGCCTGATCACACACAAACACACACACCTCTCCTTCATTCACGTCCTATGGAAGAGACCATAAAGGCTTCAAAACTAGAAGTGCGCATGAAGGATGCTTCATGCCCTGTTCCCCACACAGAGAAGAGATGAAGAGGGGGAGGTACGGTCAGCTTTCAAAACAATATGCCCCCCGCCCATCCCATGTGTGAGGACATGGTGACTCGGTGACTGTAACAGTAGGACACATCCCATCATGCGGTCAGAGTGCAGAAACCCGGTCAGCGTGCAGAAACCAGCTGTCTGCTGATGAACGGCCCATCTGCACAGCGGCAGCAAGGATTACCCCAAGGGCAGGAAAAAAGTCTTTGGAAATAGATTGAAAATCAGTTTCTTTATTTTTTTCAAACACTGTTTTATTGAGTTCTAAACCCAGTGGATTAAAAAGTCATTTGGGTCCTGGGAAGCACTGGGAAAGAAGGGAGAGCCGGGGAGGATAGGGCAGGAGTCTGGCCAGGAGCCCAAGGTCAAGTCTGGCTGTCAACTGACAAAGAGAAGAGAAGACAAGTCTGTGGCCCAGACAGGATGCCAAGTCTGGGGGCAGCAGCAGGGTCCTTGAGAGAACAGGGGAGCAAGCCTGCCCCAGTACCCAAAAAACAATGGCTATCATGTACTGGGGTTATTCTCTGTGCCTGACACTTTACCTGTAGTATTTCTAGTCTGCACAATAACACCAAAATGTAGGATTTGTTATTCCCCTTTGACAGATGAGAAAACAGAAGCCTGCAAAGGTAAAGACAGAGTTAGGAAGTGTGGAGTCAGAATGCAAACCCAGATCAGTCTGCCCCAAAGTCCACTACACCAGCTGCCAGAAACCCTGTTCTAGAAGGGGCAGCTAAGAAGGGAGGAGCCGATGAATCTCTACAGTAGCACTGTGGCCAGGTCTGGAAAGCCAGGCAAGACACCTGTGTGTCCTATCTGGGTTCTGCTGTCTCCGCGTAGGCAGCTTCGGGGCAAGGATTCAACTCCCCAGGCCTCCCACGGTTGGTGCTGGCTCCTTGGCTCCCAGCAGCCGCTGACCATAGCCAGCAAAAGACCTGGCAGGTCCTGAATCAAAACAACAGAGTGGCTGAAAGTCACACCTCTCCAGCTCCTTGCGAGTGGGTTTGATTGATTTTGACAGCTATATCATGCTTGGGTCGTTCATGAATTCCATGAGAATTGTTGGGAAGTTCATGAGTTTAGGAATCAAAGTATAGCATTTAGGGCCACTTTCTCTGTCCTCGGGAAGGCCCCCACAAGCTTAAGCCCCTGTATACGTGTGACATGCTGGCCTCAGAGATTCATGTCACATATTGAAATAGCAAATAGAAATGTGCAGGAGCGGAGGGACAGCGACACCTGGTTCTTAAGCAAATTCTAGATTGGAACAATTAGAAGATCTGACTGATGTTAAGAGTGGCCAGAGGAAAGTGAGAGGCGTCCATTTCCAGCAGACACAATGGAGGCTGACAGAGGCAGGAGCCTACCCCTGGCCACACCACCTCTGGGACACGGCACCCCCCTGGGCCTGGAGGGAGAGGGCCAATCCAGACACACTCACACTCTCATCTCTTTCCTTGGCTGGAAACAAGTGCAGGAAGCTCCCCTCCCAATTTCTTATGCTCCCTTCCCCCTTACACTCCTCTCCTTCGACTGCTCCCTTCCCCCTTCTTATGCCCCTCTCAGACCACCCAGCGGATGCCTATTCCCGCCCCCCACCCCTCCCCTGCGTCTCCTTGTAAAGTTCCATGAGATGCTCGAGGAGCACCTGCTGGTGGGGCACCCAGCACTCTGCTGGGCATCACCCTCCGCACCCCTGACATTTCTCTCCACCTCCAGAGGCTTGGAAGGGAACAGGGCAGATGAGGCCCTTCACCCACCATCTACGCCATATACCCATCACCATCCCATGAGGAAAAAAAAAAAAGTAAAACAAAGACAAAAAAAATCTTTTGTACAGAGATATATTTTTATTATACAAAGTTTGTACAGTACCAAAAAAGAAAAAAAAAAAGGTGTAAATTTTTTTTTCATTATTGTAGGTAAACGGTAGTGGAAGCCTTTTTTGTAAATGTAATAAAATGTATAAATATGGTTTTCAGAAAACATCAAGTGCTGTAAATATGTAATCTACACACCTTCTTGGCTTGTCTGCAGTATATACATTTAATTTATCTGTCTCTGTATATGAGGCTTCCCCCTGGGGTCCTGCATTATGGTACTTTCCTGAATTTGAAAGCAATTTTAAATTTTTTGAATTCAAATAAAATATAAATTTTTGCATTG
VastDB Features
Vast-tools module Information
Secondary ID
ENSG00000121904:ENST00000241312:69
Average complexity
IR
Mappability confidence:
NA
Protein Impact
3' UTR
No structure available
Features
Disorder rate (Iupred):
C1=0.075 A=NA C2=NA
Domain overlap (PFAM):
C1:
NO
A:
NA
C2:
NA
Main Inclusion Isoform:
NA
Main Skipping Isoform:
NA
Other Inclusion Isoforms:
NA
Associated events
Other assemblies
Conservation
Mouse
(mm9)
No conservation detected
Cow
(bosTau6)
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]
SPECIAL DATASETS
- Genotype-Tissue Expression Project (GTEx)
- Autistic and control brains
- Pre-implantation embryo development