HsaINT0097529 @ hg38
Intron Retention
Gene
ENSG00000049323 | LTBP1
Description
latent transforming growth factor beta binding protein 1 [Source:HGNC Symbol;Acc:HGNC:6714]
Coordinates
chr2:33397133-33399509:+
Coord C1 exon
chr2:33397133-33397282
Coord A exon
chr2:33397283-33398363
Coord C2 exon
chr2:33398364-33399509
Length
1081 bp
Sequences
Splice sites
5' ss Seq
TCGGTAAGA
5' ss Score
10.53
3' ss Seq
CATGGCTTGACTTATTGCAGATG
3' ss Score
7.7
Exon sequences
Seq C1 exon
GTTTTCTAAATAGCTTTGAGGAGTTACAGGCTGAGGAATGCGGCATCCTCAATGGATGTGAAAATGGTCGCTGTGTGAGGGTCCAGGAAGGTTACACCTGCGATTGCTTTGATGGGTATCACTTGGATACGGCCAAGATGACCTGTGTCG
Seq A exon
GTAAGAATGACGTGTGTTTTATGGGACATTAATTTTTTCCTGACACCCCGTATCTCAGTCAGTAGAGAACATTTAAGATAGATTTGCTGAGTTTCAGTTTGAGAAGATGAGAAAAGTTCTGGAGATGTACATTAAGTACAGTATGAATATACTTAATGCCACTGGACTATATACTTAAAAATGGTTAAAATGGTAAATATGTTCTGTGTATTTTACCACAATTCTTTTTTTTTTTTTTTTTTGAGATGGAGTTTTACTCTTGTCGCCCAGGCTGGAGTGCAGTGGGGTGATCTTGACTCACTGCAACTTCTGCCTCCCAGGTTCAAGCAATGCTCCTGCCTCAGCCTCCTGAGTAGCTGGGACTACAGGCACCCGCCACCACACCCGGCTAATTTTTTTTTTTTTTTTTTTTTGTATTTTTAGTAGAGACGGGATTTCACCGTGTTAGCCAGGATGGTTTCAATCTCCTGACCTCGTGATCCGCCCACCTTGGCCTCCCAAAGTGCTGGGATTACAGGCGTGAGCCACCACGCCTGGCCTCTTCTCCATCTTGAAGCAGTCCTTTTGCCCACTTTGCTTTTGTTAGTTTTAATCCATGGTGTGTCTGTAAAATAGGTAACCTAGCTTCTTAACAGATGTTTCAAGTGAGTGAGAGCCTAAATGGGTCTCATGTAGAAGGAGGTCTGTGAATGTTATGGAAGGCTTTAGACAGGCTGTATGGAGAGGCCTCTGCGTAGGTATCTGGTTCCTCTTGACAAATCTAGCAGTTCCTCCATACCTATGGGAAGGAATTTGGAAGTAATATAGTTCCTCCAACTTCCTTGAGGTTCTACTAGAAAATGTCAAGCTCACAAAATGCTCATGTTTTGCTAGATAACAGTGAAAGAAGTTCTAGAACCTCCCTGATAATCTGCCTCTTTAAGATCTCAAAAAAGTCATCTTCGTCTTGTCTGTGACTGAAGCAATGACGAGAAAGCTTCCTTGGGGTGGTCGGGGGAAGGGCCTCAGGTAAGCCTCAGGTTATGTGTCCTCACAGAATAATATCCAAGATTGTTTACCTGCATGGCTTGACTTATTGCAG
Seq C2 exon
ATGTAAATGAATGCGATGAGTTGAACAACCGGATGTCTCTCTGCAAGAATGCCAAGTGCATTAACACCGATGGTTCCTACAAGTGTTTGTGTCTGCCAGGCTACGTGCCTTCTGACAAGCCAAACTACTGCACTCCGTTGAATACCGCCTTGAATTTAGAGAAAGACAGTGACCTGGAGTGAAACAGAATCTACATAACCTAAGCCCATATACTCTGCACTGTGTAAAGGAAAAGGGAGAAATGTATTATACTTGAGACATTGCACCTACCCCGGAAGGCTGGAAATACAGAAACAGCATGGAATTGCAAGTCCTCTGAAGACAATGAGAGGATTTAGGATGAGCCCGATAGGTGTGGCAGACCAAATGGACATTTCTCTAAAAAACCAGTATATATAGTCTGTTCATATGTAAAATTCAATGGAAGAGAGGTGGAACAGTGCTGTTATTTTAAACAGAAGGTTGTATTATTATGTTGTTTTGTTTTTTTACTATTGCTTGATTAAATTTGGCATTTAAATAGTGGTGGAAATATTTTATATAATTTTCATTTTTTGGTTGTGCAGTTCCTTGGCTACTGTTTTTCTTTTACTTCAGTTTTTTAAAAATCTCAAATGAAAAAGTCTTCGATACAATATTGTTAAGCTGTATTATAAGTATTGTTACACAGGGTTATGCAATTCCCGGCCTGGAGCATTTTTGAAATTCAAATTGTCTGTCCTGTGGAGCAGGCAGTGATTTTGTTCCAAAACTTTGTATACACATTTGGAGAAAAGTACTTTATATTTTCAGTGTTTTGTCTGATTTTAATGTCCGTTCTTAGCCAAGCTGCTAGCAGGTGTTAATTGGATCCCTTTCCTTCACTGAAATGGAAGAGTTTATAAGCTTACGTTAGTATTGTAATATGTAAAGTAAGCCCAACAAAAATTTTTAAAAATTTGATGATCCCCAATATATCTACCATTGTATGTTAAATAAATCACCATTTTTGTAGAAAAAATTCTACCTGAGAGTAATTGTCAATGAGTACATGTGTATAAGTTGTATCCCACTCTCCCCACTTTTATCTTTTCCAGTGGTCTTCTGTTAATGTAGTGTCTTTTACAAGTTAATCATTAAATTTGTTAGATCTTGTTATGGGCTAAA
VastDB Features
Vast-tools module Information
Secondary ID
ENSG00000049323:ENST00000404525:29
Average complexity
IR
Mappability confidence:
NA
Protein Impact
Alternative protein isoforms
No structure available
Features
Disorder rate (Iupred):
C1=0.000 A=NA C2=0.000
Domain overlap (PFAM):
C1:
PF0000822=EGF=WD(100=60.8),PF062476=Plasmod_Pvs28=PU(39.5=66.7),PF0764510=EGF_CA=PU(0.1=0.0)
A:
NA
C2:
PF062476=Plasmod_Pvs28=PD(59.3=83.6),PF0764510=EGF_CA=WD(100=72.1)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Associated events
Other assemblies
Conservation
Zebrafish
(danRer10)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
CACCTGCGATTGCTTTGATGG
R:
CTGTATTTCCAGCCTTCCGGG
Band lengths:
347-1428
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