HsaINT0171198 @ hg19
Intron Retention
Gene
ENSG00000146242 | TPBG
Description
trophoblast glycoprotein [Source:HGNC Symbol;Acc:12004]
Coordinates
chr6:83073363-83077133:+
Coord C1 exon
chr6:83073363-83073625
Coord A exon
chr6:83073626-83074339
Coord C2 exon
chr6:83074340-83077133
Length
714 bp
Sequences
Splice sites
5' ss Seq
GAGGTGAGC
5' ss Score
8.7
3' ss Seq
CTCTCTCCTGCTTGTCCCAGGTC
3' ss Score
9.52
Exon sequences
Seq C1 exon
GAGGAGGCGCGCAGCCCAGCTCCCCTAGTCTCTCTTCTTAAATCCCCCTACCTACGGCTGCCGAGGTTGGCCGCGCGTCGGGAATCTCCCCGACAGTCCTGGCCCTCCCCCGCCCCCCGGGTTGGTTTTTCCCAGCTGCGGAGGTTGGGAGGTTGGGCCAGGGGCTGGGGTGCGAAGAGAGTCGGCGCCCGCAACGCGGAGCCGGGAAGTCGTCGCTACTCTGGTGGAACTCAGAGTTGGTTCTGGAGGCGGCGGACGCGGAG
Seq A exon
GTGAGCAGTGGGAGCCCGCGGCCTGGGAGAGACCCGGGAGGCGTCGTTGGGGCCCCTCCCCATCCTCGGGTGGAGAGTAGGGTTGGTTCGGGTTGCCACTGTACCCCGAGTCCCACTGCTGCTTTGTTCCCAGACTCTCCCCTCCTCTTTGGAGATGACTTGAACCCCTTTGAGATCCGAGGGGCTGGCGGGGCGCGGGCTGGGGGGCGACAGTTGTAGCTCCACTTCCTGCTAATGCGAGAAGGTACAAAAAGAGATCAAAAAGTCCTGTAACCTGAAACTTCCCTCGCATCCTAACCGGGACCTGGTGGAGAGGTCTGGGCGGGGGCGGAGACACCCGGAGGCCGACCTTCCGCCGAGGCGGTGCAGGAAGGAACGGGAGAGGGAGAAGTTTGGTAGGGAAGGAATTGGGGATTAAGCGGTAAGTTAGACGCGGGAGACGAGTCTCCTCGGGAAAGGCGGAGGGCGGGAGGCCGGTCGGGTTTATTTAGTGTGGGCCAGGGAAGAAGGAAGACTTTGCGGTCTGGGTGTCGGATGCGCGTCCCCCTCCGGAGTAAAAGTGACCGGAGGGGTTGGGGAGGCGAGGCCGGGGCGGGCTTTTGGAAGGAGGTCTCTGGGACAGACTGGAGACGACTAGACTCGAAAAGGCCGGTTTTTGCACTCCGGAAGCCGCGGCAGCCACCGCTGTTCACGCCTCTCTCCTGCTTGTCCCAG
Seq C2 exon
GTCCCTCAGAGGATCCAGCGAGGGGCGCCAACAAGAGGCGAAGAGGTGGCACCAGGGCGGCGGCAGGAAGAGGAGCGGGAGCAGGAGCGCGGAGCGGAGCGTCCCGACCCGCCGTGCGTACTTTCTGGAGGGAAGGGGCGGGGGAATCGGCCCCTGAGGGAAGCGCCCGGTGGCGAGGGGGTTAGCCAAGTTCCGGCTGCGGCGCCACTCCCTCGGTTCCACGAGAGGAAAGTTTTTTTTTTCCAGACGCTTCCGCCGGCTCGCGCCCTCCGGGCCCAGCCTCCCGAGCCTTCGGAGCGGGCGCCGTCCCAGCCCAGCTCCGGGGAAACGCGAGCCGCGATGCCTGGGGGGTGCTCCCGGGGCCCCGCCGCCGGGGACGGGCGTCTGCGGCTGGCGCGACTAGCGCTGGTACTCCTGGGCTGGGTCTCCTCGTCTTCTCCCACCTCCTCGGCATCCTCCTTCTCCTCCTCGGCGCCGTTCCTGGCTTCCGCCGTGTCCGCCCAGCCCCCGCTGCCGGACCAGTGCCCCGCGCTGTGCGAGTGCTCCGAGGCAGCGCGCACAGTCAAGTGCGTTAACCGCAATCTGACCGAGGTGCCCACGGACCTGCCCGCCTACGTGCGCAACCTCTTCCTTACCGGCAACCAGCTGGCCGTGCTCCCTGCCGGCGCCTTCGCCCGCCGGCCGCCGCTGGCGGAGCTGGCCGCGCTCAACCTCAGCGGCAGCCGCCTGGACGAGGTGCGCGCGGGCGCCTTCGAGCATCTGCCCAGCCTGCGCCAGCTCGACCTCAGCCACAACCCACTGGCCGACCTCAGTCCCTTCGCTTTCTCGGGCAGCAATGCCAGCGTCTCGGCCCCCAGTCCCCTTGTGGAACTGATCCTGAACCACATCGTGCCCCCTGAAGATGAGCGGCAGAACCGGAGCTTCGAGGGCATGGTGGTGGCGGCCCTGCTGGCGGGCCGTGCACTGCAGGGGCTCCGCCGCTTGGAGCTGGCCAGCAACCACTTCCTTTACCTGCCGCGGGATGTGCTGGCCCAACTGCCCAGCCTCAGGCACCTGGACTTAAGTAATAATTCGCTGGTGAGCCTGACCTACGTGTCCTTCCGCAACCTGACACATCTAGAAAGCCTCCACCTGGAGGACAATGCCCTCAAGGTCCTTCACAATGGCACCCTGGCTGAGTTGCAAGGTCTACCCCACATTAGGGTTTTCCTGGACAACAATCCCTGGGTCTGCGACTGCCACATGGCAGACATGGTGACCTGGCTCAAGGAAACAGAGGTAGTGCAGGGCAAAGACCGGCTCACCTGTGCATATCCGGAAAAAATGAGGAATCGGGTCCTCTTGGAACTCAACAGTGCTGACCTGGACTGTGACCCGATTCTTCCCCCATCCCTGCAAACCTCTTATGTCTTCCTGGGTATTGTTTTAGCCCTGATAGGCGCTATTTTCCTCCTGGTTTTGTATTTGAACCGCAAGGGGATAAAAAAGTGGATGCATAACATCAGAGATGCCTGCAGGGATCACATGGAAGGGTATCATTACAGATATGAAATCAATGCGGACCCCAGATTAACGAACCTCAGTTCTAACTCGGATGTCTGAGAAATATTAGAGGACAGACCAAGGACAACTCTGCATGAGATGTAGACTTAAGCTTTATCCCTACTAGGCTTGCTCCACTTTCATCCTCCACTATAGATACAACGGACTTTGACTAAAAGCAGTGAAGGGGATTTGCTTCCTTGTTATGTAAAGTTTCTCGGTGTGTTCTGTTAATGTAAGACGATGAACAGTTGTGTATAGTGTTTTACCCTCTTCTTTTTCTTGGAACTCCTCAACACGTATGGAGGGATTTTTCAGGTTTCAGCATGAACATGGGCTTCTTGCTGTCTGTCTCTCTCTCAGTACAGTTCAAGGTGTAGCAAGTGTACCCACACAGATAGCATTCAACAAAAGCTGCCTCAACTTTTTCGAGAAAAATACTTTATTCATAAATATCAGTTTTATTCTCATGTACCTAAGTTGTGGAGAAAATAATTGCATCCTATAAACTGCCTGCAGACGTTAGCAGGCTCTTCAAAATAACTCCATGGTGCACAGGAGCACCTGCATCCAAGAGCATGCTTACATTTTACTGTTCTGCATATTACAAAAAATAACTTGCAACTTCATAACTTCTTTGACAAAGTAAATTACTTTTTTGATTGCAGTTTATATGAAAATGTACTGATTTTTTTTTAATAAACTGCATCGAGATCCAACCGACTGAATTGTTAAAAAAAAAAAAAATAAAGATTCTTAAAAGAATTACAGTGTGTGCAAGTTTGCTTTGAAAAAAGGATGAAGGGCAGGAGTATTCAATGGTCTTGGTTCCGATGATAATTATTACTTAACATAGCTGAGAATCAAACTGTAGCAATGTCTAATATAAATAGACTTGGGAGATCGTTTTGAAATGGTGGATCCTTTTAGTATTTAAATGGAGAGTTTGAGTATTCATGTGACTGTATGGTCCCAAAGTTAATGCTATTTATGAAACAGTTTTGTAAGAACATAATGAAGTTGGTAAAAGCTAAGCGTTCTGCACAATAAACAGTTCCCAGTTTGGGGCTTTTTCAAGGCTAATGAAGTTATTGTTGGTCTAGAAAAATAGTATTTACTTAATAAAACTCTGTTTGAAATTGTTCTGTGGATTTTTAGAGCAGAATTTGAAACAAATGTAATGCAAATAAATATAAAGATAAAGTGTCTTAAAGACAATATTCTGAAATAAAAGATATAAAATATAATTTAA
VastDB Features
Vast-tools module Information
Secondary ID
ENSG00000146242-TPBG:NM_006670:2
Average complexity
IR-C
Mappability confidence:
NA
Protein Impact
No protein impact description available
No structure available
Features
Disorder rate (Iupred):
C1=NA A=NA C2=NA
Domain overlap (PFAM):
C1:
NA
A:
NA
C2:
PF0146213=LRRNT=WD(100=7.1),PF138551=LRR_8=WD(100=15.2),PF138551=LRR_8=WD(100=14.5),PF0146319=LRRCT=WD(100=6.2)
Main Inclusion Isoform:
NA
Main Skipping Isoform:
NA
Other Inclusion Isoforms:
NA
Associated events
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:
AAATCCCCCTACCTACGGCTG
R:
TTCCCTCCAGAAAGTACGCAC
Band lengths:
358-1072
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]
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)