HsaINT0090503 @ hg19
Intron Retention
Gene
ENSG00000135862 | LAMC1
Description
laminin, gamma 1 (formerly LAMB2) [Source:HGNC Symbol;Acc:6492]
Coordinates
chr1:183109539-183114727:+
Coord C1 exon
chr1:183109539-183109638
Coord A exon
chr1:183109639-183111668
Coord C2 exon
chr1:183111669-183114727
Length
2030 bp
Sequences
Splice sites
5' ss Seq
TGGGTACGT
5' ss Score
7.7
3' ss Seq
TGTACTTTCTGACCCTCCAGGGC
3' ss Score
9.72
Exon sequences
Seq C1 exon
GCTTCACAGGCTGCTCAAGAAGCCGAGATCAATGCCAGAAAAGCCAAAAACTCTGTTACTAGCCTCCTCAGCATTATTAATGACCTCTTGGAGCAGCTGG
Seq A exon
GTACGTAGCCATAGAGTCATTTTTGTCAGTCTCTGAATCTTTTGTACTGTTCTTAGGATCTGATATAGTACAGTTGACTCAAAAGCAGATGATATAGGTTTACATGAATCCCTTTTAAGTCATTAATTAAATTATTAATATTTCCTTTTGCTGTTGCTTATTTTTGAAAGCCTTATAAAATAAATGTTTGTCTTGCATGACAGGGTCTTTAAGAGCAACTTGCTTCTTTACCATACTTATTATTTGTCAGCTTTACAGTGTGACCTGAATCATGACTTTAGGCTGTGTTAATGTGACAAGTACTTACTAGGTGCCTTCTGTGGACCTTGCCCTAAGTAGAACACTGTGGTCTGAGGAGTTTCTTTTTATATTTTGAAGATATATTGCCAGCTAGGGTAGCATTTATGGTCCAGTATCATTGTACAACTAAACAGTGATTTTTCTTAACTCATCTTGCTGGCAGTATCTTTAAGGGATTTAAAGTAAAGGATTTCAATAGTAGAATAAAAGAATAGTAGAATCACAGGCTGGGTGTGATGGCTCACACTGGTAATCCCAGTACTTTAAGAAGCCATGCAAGGAGGATAGCTTGAGGCCAGGAGTTTGAGACCAGCCTAGGCAACATAGCGAGATCTCACCTCGTCTCTTCAAATTATTTTAAAAATTAGCTGGGTGTGGTGCTACACGCCTGTAGTCCTAGCTACCCGGGAGACTGAAGCAGGTGCATCACTTGAGTTTGAGGTGATAGTGAGCTGTTATCGTGCCACTGCACTCCACCCTGGGCAACAGAGCGAAACCCTGTCTCAATTTAAAAAACGAAAAAGAACACTTAAAACTGGTCATGACTTTACTGCCTGGAATTCTCTTCATTTGCTAAGTAAGGACAGTCCGATGAGGGGAAAGCTTTCATGCCAAAAGAGAGAAAAACCTTGATTTTTCAAGGAAATCTATGCATACGGAAACCTTCTTTTAATCCAGTTTGATAGGGTGTTAGGGAGCAGGCTTCATTTTAGGACAGATGCACTTTTGTCACCAGACTCCATTATAAAGTGTCAACACTCTAGCCAGGACTCTTTGTAGCAAGGCATTATATTTTAATTTGCCAGCCTTTAAAGACTGGTGCATTTTGTTTTGGTGGGGGGCTACAGGGGTATTTTTTATCGGTCTCAAATGTCAAGAATAAGTTATGTGCCAACAGATGGATATAAAATGAAAGTAAGCTAGAAGAGAAAGCTTTTTGTGGAACAGCCAGACTTTTAACATTAGTCTGACTTGGGTTAGTATCTTTGCTTTGTTGCCTATAGGCTGTGCAAACTTGGGCAAATTATTTAACATCTGAGAATCACTGATGTAAAATGGTCTTGTGAGACTTTAATCAAGTCAAGTATGCATGAAATGCTGTCTATTGTGTCTGCTTTTGTTTGTTATGGAAACATCTCATTTCTTTCAAAAGAACCTCTTTTTCTTGCTAAGCTTAAAGTGAAGACTTGCTGAAATTATTTCAGCATTTTACTCCTGGCCATTTTCCATAGGAAGGCTCCTAATAGTGTCTAACTCCTGAAAGCAGAAAGTGACCTTCAAAACTGACCCATCTTCCCTGGAATCTCTCTAAGAGCTGAGGGATTAGGGTTCTTAGAGATTTGTGTATCTTTGATGGCACTAAAATGACATAGAGTTTACATGTATACACCTGGAAAAGGTATTAAATGTTATCAGATGGCCCTCAAAGGTCTAGAACATGGTAGCTGTGCATTGAGGAAACATTCTGCAAAAACCATTGTCTCAGAAAGAAACATCCAGCTCTATATTAATTGTATGCTCAGACCCATCCCTGCTGGGTTAGGTCAGCATTTGTACTTGGTTTGCATATTTTATACCATTGTGTGACATCAACAATCTGCAAGTCACATTTGCCGGGCTGCCTGTGCAGAATGGCAGCTGCTGGGCCTAGAGTCTAGTGCAGGTACTTGTGAAGGGATCATTCTTACTGAATATGTCTGTTCTCTTCTATGTACTTTCTGACCCTCCAG
Seq C2 exon
GGCAGCTGGATACAGTGGACCTGAATAAGCTAAACGAGATTGAAGGCACCCTAAACAAAGCCAAAGATGAAATGAAGGTCAGCGATCTTGATAGGAAAGTGTCTGACCTGGAGAATGAAGCCAAGAAGCAGGAGGCTGCCATCATGGACTATAACCGAGATATCGAGGAGATCATGAAGGACATTCGCAATCTGGAGGACATCAGGAAGACCTTACCATCTGGCTGCTTCAACACCCCGTCCATTGAAAAGCCCTAGTGTCTTTAGGGCTGGAAGGCAGCATCCCTCTGACAGGGGGGCAGTTGTGAGGCCACAGAGTGCCTTGACACAAAGATTACATTTTTCAGACCCCCACTCCTCTGCTGCTGTCCATGACTGTCCTTTTGAACCAGGAAAAGTCACAGAGTTTAAAGAGAAGCAAATTAAACATCCTGAATCGGGAACAAAGGGTTTTATCTAATAAAGTGTCTCTTCCATTCACGTTGCTACCTTACCCACACTTTCCCTTCTGATTTGCGTGAGGACGTGGCATCCTACGTTACTGTACAGTGGCATAAGCACATCGTGTGAGCCCATGTATGCTGGGGTAGAGCAAGTAGCCCTCCCCTGTCTCATCGATACCAGCAGAACCTCCTCAGTCTCAGTACTCTTGTTTCTATGAAGGAAAAGTTTGGCTACTAACAGTAGCATTGTGATGGCCAGTATATCCAGTCCATGGATAAAGAAAATGCATCTGCATCTCCTACCCCTCTTCCTTCTAAGCAAAAGGAAATAAACATCCTGTGCCAAAGGTATTGGTCATTTAGAATGTCGGTAGCCATCCATCAGTGCTTTTAGTTATTATGAGTGTAGGACACTGAGCCATCCGTGGGTCAGGATGCAATTATTTATAAAAGTCTCCAGGTGAACATGGCTGAAGATTTTTCTAGTATATTAATAATTGACTAGGAAGATGAACTTTTTTTCAGATCTTTGGGCAGCTGATAATTTAAATCTGGATGGGCAGCTTGCACTCACCAATAGACCAAAAGACATCTTTTGATATTCTTATAAATGGAACTTACACAGAAGAAATAGGGATATGATAACCACTAAAATTTTGTTTTCAAAATCAAACTAATTCTTACAGCTTTTTTATTAGTTAGTCTTGGAACTAGTGTTAAGTATCTGGCAGAGAACAGTTAATCCCTAAGGTCTTGACAAAACAGAAGAAAAACAAGCCTCCTCGTCCTAGTCTTTTCTAGCAAAGGGATAAAACTTAGATGGCAGCTTGTACTGTCAGAATCCCGTGTATCCATTTGTTCTTCTGTTGGAGAGATGAGACATTTGACCCTTAGCTCCAGTTTTCTTCTGATGTTTCCATCTTCCAGAATCCCTCAAAAAACATTGTTTGCCAAATCCTGGTGGCAAATACTTGCACTCAGTATTTCACACAGCTGCCAACGCTATCGAGTTCCTGCACTTTGTGATTTAAATCCACTCTAAACCTTCCCTCTAAGTGTAGAGGGAAGACCCTTACGTGGAGTTTCCTAGTGGGCTTCTCAACTTTTGATCCTCAGCTCTGTGGTTTTAAGACCACAGTGTGACAGTTCCCTGCCACACACCCCCTTCCTCCTACCAACCCACCTTTGAGATTCATATATAGCCTTTAACACTATGCAACTTTGTACTTTGCGTAGCAGGGGCGGGGTGGGGGGAAAGAAACTATTATCTGACACACTGGTGCTATTAATTATTTCAAATTTATATTTTTGTGTGAATGTTTTGTGTTTTGTTTATCATGATTATAGAATAAGGAATTTATGTAAATATACTTAGTCCTATTTCTAGAATGACACTCTGTTCACTTTGCTCAATTTTTCCTCTTCACTGGCACAATGTATCTGAATACCTCCTTCCCTCCCTTCTAGAATTCTTTGGATTGTACTCCAAAGAATTGTGCCTTGTGTTTGCAGCATCTCCATTCTCTAAAATTAATATAATTGCTTTCCTCCACACCCAGCCACTGTAAAGAGGTAACTTGGGTCCTCTTCCATTGCAGTCCTGATGATCCTAACCTGCAGCACGGTGGTTTTACAATGTTCCAGAGCAGGAACGCCAGGTTGACAAGCTATGGTAGGATTAGGAAAGTTTGCTGAAGAGGATCTTTGACGCCACAGTGGGACTAGCCAGGAATGAGGGAGAAATGCCCTTTCTGGCAATTGTTGGAGCTGGATAGGTAAGTTTTATAAGGGAGTACATTTTGACTGAGCACTTAGGGCATCAGGAACAGTGCTACTTACTGATGGGTAGACTGGGAGAGGTGGTGTAACTTAGTTCTTGATGATCCCACTTCCTGTTTCCATCTGCTTGGGATATACCAGAGTTTACCACAAGTGTTTTGACGATATACTCCTGAGCTTTCACTCTGCTGCTTCTCCCAGGCCTCTTCTACTATGGCAGGAGATGTGGCGTGCTGTTGCAAAGTTTTCACGTCATTGTTTCCTGGCTAGTTCATTTCATTAAGTGGCTACATCCTAACATATGCATTTGGTCAAGGTTGCAGAAGAGGACTGAAGATTGACTGCCAAGCTAGTTTGGGTGAAGTTCACTCCAGCAAGTCTCAGGCCACAATGGGGTGGTTTGGTTTGGTTTCCTTTTAACTTTCTTTTTGTTATTTGCTTTTCTCCTCCACCTGTGTGGTATATTTTTTAAGCAGAATTTTATTTTTTAAAATAAAAGGTTCTTTACAAGATGATACCTTAATTACACTCCCGCAACACAGCCATTATTTTATTGTCTAGCTCCAGTTATCTGTATTTTATGTAATGTAATTGACAGGATGGCTGCTGCAGAATGCTGGTTGACACAGGGATTATTATACTGCTATTTTTCCCTGAATTTTTTTCCTTTGAATTCCAACTGTGGACCTTTTATATGTGCCTTCACTTTAGCTGTTTGCCTTAATCTCTACAGCCTTGCTCTCCGGGGTGGTTAATAAAATGCAACACTTGGCATTTTTATGTTTTAAGAAAAACAGTATTTTATTTATAATAAAATCTGAATATTTGTAACCCTTTA
VastDB Features
Vast-tools module Information
Secondary ID
ENSG00000135862-LAMC1:NM_002293:27
Average complexity
IR-S
Mappability confidence:
NA
Protein Impact
Alternative protein isoforms
No structure available
Features
Disorder rate (Iupred):
C1=0.412 A=NA C2=0.435
Domain overlap (PFAM):
C1:
NO
A:
NA
C2:
NO
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping 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
- 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)