HsaINT0092777 @ hg19
Intron Retention
Gene
NA
Description
NA
Coordinates
chr3:38492518-38496311:-
Coord C1 exon
chr3:38495994-38496311
Coord A exon
chr3:38494717-38495993
Coord C2 exon
chr3:38492518-38494716
Length
1277 bp
Sequences
Splice sites
5' ss Seq
GAGGTGAGG
5' ss Score
8.41
3' ss Seq
TCCTATCTTGTCTTCTGCAGTTC
3' ss Score
10.39
Exon sequences
Seq C1 exon
GCTACACTTAGTGACTCTGAGGGACATGCAACCCTCCCCGCATGCTGCTGCTGCTGCTGCACCTACAATCCTGCCACCCCCAATGAGATCTGCCCACCCCTCTTGGCCGCCTTCCCCACGCTCAGGTTTTCCTCACTCTTTCCCTGGGTTCCACGCGCCCGCGTAGCCCGAACTCCGACCCTGAGGCTCCGCGTCCCGGCCCCCATCGCAGGGGCGCCTCTAGGAACCAGAATCCCGCAGATGACTGCACAGACAAGATCGTGCCCCCAAGTTCGGCGAGCCGGGCGCCCACCGCGCCCCCAGCCCACGCCCCCGGAG
Seq A exon
GTGAGGGCTGAATACAGGTGGTGCGGCGACGAGGCCCCGGGCCCGCCCTTTGTTGGTAAACACCGCGCGGCGCCAGAGGCCAGCCCCGCGCGCCCTCTCGGCGTCCCCGCGCCGCGCCCAGTTCTTACCGGCGCACAGCGATCCCCAGAGGAGGGCGAGGGCCACCCAGGGCGCCGTCATGTTCCGCGGCGCCGCCCCGCGCACACCCGGAGCCCGCGGGCAGGGCCGCACGGCGCTCCCGGGGCGCGCAGGGCCAGGCGGCGGCTGCGCTCTCCTTCCCGCTCCTTCCTTCGGTCTCGTTCCCTGCGCGCTTCCTGCGCCTTCGTCCCCGAGCAGCGTTCGGGCTCCAAGGGCCGGTCGGCGGGGCCGGGCTCAGGGCCGCTGCGGGCGGCGCAGGCTGCGGCCCGGGCTCCGGGGCGACGCGGGGGCCGGGGGGCGGCGGCGGGGCACGGGCCGGGGCGCGCCCGACTCAGGCATAGCGCGGCGGGGCTGGGCCCGGGCCCCGGGCGCAGGGGCCGAGTCCGGAGGGGCCATGAACGGGGGGAGGGGTGGGGGGGAGGGGAGCTGAACCGAGTCCAAAATGGCTCCTGAGCGGCGGCCACGGAGCCGAGCCAGCGGGGAAACCCGGATGTTGGATACAAAGAGGCGGGCGGGCTGGGCGGGGAGGGGGAGGGGAGGCGGGCCCTCCGGCCGCGTGGTCCGCGCCCCCCTGAGGGGCGGGGCCCCAGAGAAACAACAACACGGAGGCCCCGCCCCCATCCCGCGCCCTGTGGGAGGACGCGCGTGCACCAACTTGCTGGAGGACAGGGCGGGGCGCGCGGACGGAGGTGGCGGGAATGGGCTCCTGACCACTTTGCCCGGGAGCCTGTGGCCACTGCACTCGCAATTAGTGCCCCGCACGCTCGAGCCCAAGCTCCTGACACATGCTGCCCTACAACCCCGGAATGAGTGGATAGTCCCGGGACTCTGGCCCAGACGCCTCTGTGCCTTGGATTCCCCACCTGTGCAATGGGGGTGACAGTGAACCGTGGGAAAGTCGGATCTCTACTGATGGGCGAATTAAGTGGCAGAAAGAGGCTGACTTCCCTGAATTGACAAGCAGTCTCCCGTCTGCAATCCCTTGCCACACACTCAAAGGCACAGCTAGGGCGGGGAGTGGTCATTTAAACCCAACCAAGTGAGGGAGCGGGCAGAGTCCCGCCCCTCTAAGCCCAGCAGGTGGAAAAGGGCCTCTGGCAACCTGCTGGCCCTCCCTAATCCTATCTTGTCTTCTGCAG
Seq C2 exon
TTCCTGCGCCACCCACAGCGGCCCTGAGCTTCAATCTGCACTTTCAAAACTTCCCAGTTGCCTCCAGAGCCCTGCAGTTGAAGATCTTGTCTAGCACATGGTTTTGCTGTTTTCCTCACCCCGAACTCCCTCCTTGGAGGGCCATCGTTCTCTGTCTCAGATTCCACCCTCCTTATCACACAACTAGAGCTTCGGAGGAACGTGATGGGGCTCCCAACTAAGGAGGGAAAGACCATCATAGCTCAGGGATGAGGCTCCGAGATCCTCAGATAACATTAATTGTCCTCTGTCTTCTCTTGACTTGGCACATCCTTGCTTGGAGCAGGGCAGGAGCAGCTGAAAGGGAGGTGGCACCTGGAGGTCTCAGTCATTTCACTTCTCTGAGCCTCAGTTTTCCCATATGCAAAGTGAAGAGGTACACTCCCTCAGGGTTTTGCATCTTCTTAATGGCAGAAACCTAGTCAAACAAAATATTATGTAAATGTTCACTATAGGCAGGGCGAGGTGGCTCAAACCTGTAATTCCAGCACTTTTAGAGGCCCAGGAGGCTCTTGAGGTCAGGAGTTCGAGACCAGCCTGACCAACATGGCAAAAACCTGTCTCTACTAAATAATACAAAAATTAGCTGGGCATGGTGACACACACCTGTAATTCCAACTACTCGGTAGGAGGCTGAGGCAGGAGAATCGCTTGAACACAGGAGGGAGGCGGAGGTTGCAGTGAGCTGAGATTGCACCACTGCACTCCATCCTAGGTGACAGAGTGAGACTCTCTCTCAAAAAAAAAACAAGTTTATAAAGGAATGTATATTGTTCTGATTGACATTGAAATAGGGTCAACTACCCCCGGTCACCAGAGCAGCAGGAACACCTCAGGGGCCACACTTTGGAGGCACTGCCCAGAAAGATTTCTGGGTCTTTAAAAGTCCCTTCCAGTCCTGGGAAATTCTATGTGAAAATGATGGTCCCTGCTTGCTATAATCCCTACAGGTGACTTATTATCTAAGCCATTTAACACAGGATTGAATACTATGCGACTGTGTGCCAAGCAAGAAGCAGTGTTGTATGGGACACCCTAGCTGTGTATAAGGTATCTGGTAATAACACAGGAGGCCACAGTGATAGACTGTGATAACGGAAGTAATTCCATATCCAGTTTAAGTGTCTTTTCTAGGGAGTATAAATCGTTATCTCCATTCCAATATGGACTGAAAGGTATCGACTTTTATCCATGTGCCAAAAATTAGATTGGCTGGTTCCTCTCTTCTACTCCATACCAGGTCAGGTATCATAATAAGGACTCAGAGTGGTCCAAGCTGCCCAAATATCTGTGTCTTCCACTCTGACCTGTCTGGGAACCCCAAATTTATATCCAACTGCTTACTTGACAACTGCAGTTGGTAGCCTATCAGGCATCTCAAATTTGACCTAGCCAAAGCAGAAGTCCTCATTTTCCCCGTAAATCTCCTCCCCAGTTTTCCCTGTCTGAATCAATGGCATAAGCAACTACACCATTGCTCAAATCAGAACCTTATGAGTCCTACTGAAACCAGCCAAAGAGTCCCATAGACAGTTGTTTTTGTTTTTGTTTTTGTTTTTGTTTTTGAGACAGAGTTTGGCTCTTATTGCCCTCACTGGAGTGCAGTGGCACGATCTCGGCTCACTGCGACCTCCACCTCCTGAGTTCAAGTGATTCTCCTGCCGCAGCCTCCCAAGTAGCTGGAATTACAGGCACGCCACCATGCCCAGCTAAGTTTTGTATTTTTAGTAGATACAGGGTTTCATCATGTTGGCCAGGCTGGTCTTGAACTCCCAACTTCAGGTGACCTGCCTGCCTCAGCCTCCCAAAGTGCTGGGATTATAGAAGTTGACCCTTTTGCAGTTAAAGCTGGAAACTTACTTGTTTTATCCGAGTTCCTTCCTCAGGAAAGGACCTTCAGGCCTCTCACAAAAAGTATCAAAGAACTGAAGCCATAAAAAGTATCAAAAGAACTGAAACCAGATCACTGCACTAGATGCTGGGCCCCTCAGTCACCATGATTGCTTCCTTGCCCCTCCCATGTTCCTGTTTTCTTACATATTGTTACATTTCTTTCCTGCTATATAAACCCTTGGTTTTGGTCAGTCAAGGAGATGGATTTGAGACTGCACTCCCATCTCCTTGGCTGCAGCACCTGATTAAAGCCTTCTTCCTTGGCAA
VastDB Features
Vast-tools module Information
Secondary ID
-LOC100128640:NR_028389:1
Average complexity
IR-S
Mappability confidence:
NA
Protein Impact
NonCoding
No structure available
Features
Disorder rate (Iupred):
C1=NA A=NA C2=NA
Domain overlap (PFAM):
C1:
NA
A:
NA
C2:
NA
Main Inclusion Isoform:
NA
Main Skipping Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Other assemblies
Conservation
Rat
(rn6)
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:
GGAACCAGAATCCCGCAGATG
R:
GGAGCCTCATCCCTGAGCTAT
Band lengths:
354-1631
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]
SPECIAL DATASETS
- Autistic and control brains
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)