GgaINT0136938 @ galGal4
Intron Retention
Gene
ENSGALG00000003800 | PABPC4
Description
poly(A) binding protein, cytoplasmic 4 (inducible form) [Source:HGNC Symbol;Acc:HGNC:8557]
Coordinates
chr23:5426204-5432240:-
Coord C1 exon
chr23:5432006-5432240
Coord A exon
chr23:5426398-5432005
Coord C2 exon
chr23:5426204-5426397
Length
5608 bp
Sequences
Splice sites
5' ss Seq
ACGGTACGC
5' ss Score
9.85
3' ss Seq
GTTCTGTGCTTCTCTTGCAGCTG
3' ss Score
11.51
Exon sequences
Seq C1 exon
CTCCCTGCAGACGCCACAGCCACGCCGAGAGCGGTGCGGGCGATGGACGCGGCGGGCAGCAGCTACCCCATGGCCTCGCTGTACGTGGGCGATCTGCACCCCGACGTCACCGAGGCCATGCTGTACGAGAAGTTCAGCCCCGCGGGGCCCGTGCTGTCCATCCGCGTGTGCCGCGATATGATCACCCGCAGATCCCTCGGCTACGCCTACGTCAACTTCCAGCAGCCGGCGGACG
Seq A exon
GTACGCGCTGTCTCCCGTGCCTTCTCCTCCCCTCTTGCCGTTAACCCGCCCTGTCTGTGCCGTCTCAAACAGCCGCGGTGGCGGCCTTACGTTTCCAAACGTTCAAACGCAGCTGCTCGGTTTCCTGCACTGCCCGGGGTGAGGCTCCGAGCGCTGCCGGCCGTTCTGGGTACCCGGCCGGGCACGGCTGCCCACGGAGGTGTTCCGGATCGGGGGGGAGGTGGCAGCTGGGGACGTGGCTGGTGGGTCCTGGGGGTGGGTTGGCAGTTGGACCTGAGGATCCTCCAGGCCTTCTCCAGCCTGAATGATTCCACGGTGTGTGTGCTCTGTGTAGCTTCCTTTCCCTGTGTTGCATCCATAGGGATCGCTCGGTCAGCAGCTGTGGAGCTGCAGTGTGTTTTACAGGCACTTCATTTTACAGAAATTTCACCCATGTCACTGCTTCTGAAGTACTTGACAAGCACACATCTTGGTGTCCTCTCTGGTTCATTGGACTATTTCTGTATTACTGAAAGTCTCCAAGTTTGGAGATGTGGGTTTGGTGCAGCTCAAAAAGAGAGCAATCTCCACCACGTTCCTCTTCATTCTTGTGTAGGTTTAGGCTATTTATGTGGTCTTCACGTAGCCGGTGCTGGCAGAAAAGTCTGCATGTAATCAGCCCAGATTGGGTGCTTTTCTGCCCTAACCCTCTGGCTGCTCACCTGCTGTAACTTCAGACCTGGGAGTGCTGGTGGCTGCACATTGCTGTATTTGTGCAGGCTGCTGTGCAGCACTCTGAAGTGGTGTTCTGGAGCTGGTGGGAAAGGTTTATTGTGCAATGCATGTGAAACTGTGCCGTCTCATGTGCAGAATCCATGCTGGTTTATTCTGGCCAGATTGCTTTTAATAGTTCCATTTGGCACCTGCTGAAGTAGATATTCCAGTGCTGAAGCAGTGCTTCATGAAAACATGAAAGATGGGACAGAAAAGGTCATTGTGAAATGTGTATTTTTCTGGAAGAAAAGTAGCTCAGTATTTTCTGCCCTCGTTTTCAGGGCCTTTACTTGTTCACTGGTGCACACTTATTGCTCTGTGCTGTGGTTTAGCAGTATCTATATATAGACATCTCCAGAACAGGCAGGAGTGAACGCTTCCCTAGGATTCAGAATCAGTTCATAACAGCCCAGACTTCAACAGCCAGTAGCCTATCCTGTAGCCTGCCATTGGCCATCCAGATAGCAGACTTCCACAGGGTAATACATTGCCTTCAGGTCAAAGTCTTCACAATGTGTAGAATAGAAATGTCATCACAAAGCTGTGCTCCTGCAAGCCAGTAGTTAGCCTCTGAGCTCTCAGCTGATTTGATGTGAGCTGATGGTGACTGTGCCATCCTGGCTGCTGTCCTCTTTCCCGGTTCAGAATGCCTTCTGTGCTTTCAAGTAGAGAAGACCTGTGTCAGGTAGGTGCAGGTATGATGTTAAAAGGGAGGAGTAGCTAGTCATATATGCTTACTGTATCAGGAAGAAGTTCTCGTACAAATATGAAGGCAGCTGGCCTCCCCATGGATTTCAAGGTAAACTTTTATGGTAATAAATAGGCATGAGTTTAGAGGGATGTCATTCTGGGCTCCTGGAGAAGCAGCAGACATTTTAGGAAGTCCCAGTACTTGAAGTGATACTTTGACAGAGTAAGTGGTGTCCTGTTACTGGTAGGTCTTCCAAGGTCAAGTGACTTAAACCTTGTCTTTGAGTTACTATTGGGAGGGAGAAATATGCAAACTCTCCTCCCTCCACAGATAGATCTCTTTCAAAAAGTTCCTTTCTGGTGTAGCAAACAGCAGCATGTTATTTTGTGTGAGTTAAAGACGGCTACTGTGCCAAACATCACACAGTGGAGCAGCAGTGGGTGGGAGGTGAGCAGTTGTGTGTTGGGGTCTCTCTGAAACCAGGACTCAAATTTCATGAAGAACAGAATTTTTCTTGTCAGATGCATGAGTTTTGGGTTTGGCTTTCAAGATGGCAGGACCCAGTACTTCCTGCATGAGGACTTTCTGAGAAGACAGATCTGTACTTTCTTTCCAGGGATGCATAATCAGAAATGTGTTTGGACTTTGTTACCCATTCTAGGAAATGATGGGCAGTATTCTGTAGCACTGCTACAACACAGTGCATAAAAGCACTCAGGAAGCTTTGTTACGGGCACACTGCTGGAGTGTTTGAAATGGTGGCAGGCAGTAAAGCTGATAGGATAGTTTGTATTTCCTGGATACCTTTTGTGGAAGTAGGAGTGCTTTGCAAGTCTGAAGATTTGTCACATCTTAACCTTTGTGTGGGAAATAGGATTCTCTCCTTACTGCCTGCAGAAGCTGAACTGTTTACAGGTCAGGTAGCAGTCAGAACTTTGCTGTTCTTTGGGACCACCAGGAGATCTCTGTAATCATATCCTGAACATCTGTGTTTCCAGAACTCCTGCATCTGAACTGGTTCTGGGCTTGCATTTTTCTTGTTTTTTTTCTCAGCTAATGGGATGATGCTTTACCCTGGAAGGCGATATTTTTGGACATGCATTGTCTGATAGTCTGCAGAGAGGTTATTTTTAGTGAAAATGAGCTCTGCTGCCTTCAGTTGAGGTTCTGTGGCATGGCAGCCAGTGAATGCTCAGTGCTGGGTCAGTCCTGTTCTGATAGATAGGTTAAGGAAATACTTCAAAGTTCTGGCTAGTTCAGACTTAGCCATGGTTGTTAATATTTGTTCTTCTTAAGTGTAAGTGGAAAGAAAACAAACTAATTTCATTTGGAAGAAAAGCTCAGTTTCCTTTTAAATGTGTTCCTCATGCAATTTAGTTGCATTCCAGGGTTTCATAACCTTGACAGTTAGGACAGCTCAGATAATGATGGAGAGAAACTTCAATATGGCCATAGAGATAAGCTGTTCTGGGAGTACAGAGAACACTGCATATTTCCCAAGCCAAGAAGGAACCCGGGGCTGGGATTAGATAACTGTCTCTAAACAGAGAGGTGTAGAAGGGTATAGATAAACTTGTCCTTCCTTCTTAAAGGAGAGATGGCAGTGTAAGAAAGACATCCAATGTAAAGCAGGTGTGCTTTACATTGCACAAAAGGAAGGAGTGGTTATGTACATAAACTTCATTGCTGGCAGCGTTTTGTTATACTTCAGTGATGAAGGGATTGAAAGGAATGGACATCCTTGCTAGTTTTATGTGGCTAAATTTGCAGTGTTTTTGTTGGCAGGCCTTTATTACCTAGTGACACAAGCAAGAGCACAGAGGTCTGCAGAGCAGCTGATAAAACTCCTTGTGCTGAGCTTCTCACGAGTGAATCCTGGTGCATGGTATCTCTTTATGCTGCTCAGCCACAGTGGCCAATTCCTGCATTGTGTTAGCTCTGCGTCAGGGAGCCTAGCCTGTAAGTGAGACTAATTACTTTGAGGCCTAAGGCAAGCTGCAAGGAATGCTCACAGATTGGTTTTCCCTGTCCAAAAGGCACCTGAAGAACTGAAAGAGCCTGAAAGGCAGTGTGTGTGTGCGCAGTGTTGGATTTGAGTTGCAGTTCAGTCTGCTGGGAGGATGACAGGAACGAGTGGGAGTGAAACAGATACGGGAACTGAAATGGCTGAAGGTTTGTGGCTTAAGTAGGGGAAAATGCGAAGGTGTTTGCTCAGGTGGAGGAAATGAATTTGCAGTGTTTATTCTGAGCCACTGTTATCACTGTGCTGATCCTTCAGGGACTTTCTCAGGTACTGGCATGATATGATTGCATTTCTGCCTGGGAGTGTGGCAGCCCTCAGGTTAGGAAATCTGTCTGGGGCTTTCTTGCACCACTGCTAACAAGAAGCATTTTAGCATTTGAGTTTATTTCAAGCAGAGTATAATAGTGCTGTGGAATGCTAGATAGCTGCTTAGAGCAGTGCAATAGCATCTGCTTATGTATGTGCTTAGAAAGCTTGAAAGAACCAGGAGTAGGCTCATAGCCTGTCTATCAGTAGCTGCTGCACAGCATTTCACAGTTCCCTCTGGTTGCTTGCCACTGCTTCATCTGCTTGGCACCTTTCAGCAGGAGCTCTGTTTCTGCTGCAGATGGTATATACAACTTGTGTGTGTCCTTGCCAACACATGCTTCTGGAGGACCTCTCTTTGCTATAAATAAACACTGCCAAATTTGACGACCTGCACCAAGTTGCCTGCTGAGGTGCCTACCAGGAGCTGGCCACGGAGAGAGCCACAGGGTTGCGTTGACTCAGAGTAGCAGCTGAGGAATCATTTTAGCATAGCAATTAATTGAATGTAATGCTTCTAAATAGCTAATAGAGCAAATAGAGCTCTAGCATGTAAAATTTTCCTCCTGAGGTGGTTTTTGTCGTCTTAATTTTCCTAGTTTCTCTACTTCAGTAACTAGATCCAGCAGAACTTGTTTCACAGTAGGGATTGTGTGTAAAGGACTGGGGGAAAAAAAGAGATGGCACCACTTCAGCTTAGAAAACAGTAATAGGAAAAGTCTTCAAAGCACATGGAAAACTCTAATAAACGTTCATGCAGTAATTCAAACTGATTTTGTGGTAGGGAGTGCAGGAGACTTCTGTAGGCAGTGCCCCACTGAGGATTCTAGAGAGCTCTGAAATGCTGTGTGGCCACTCTGCACTAGCAAAGAATCACTTGAAAGGAGAAGGTGTCCACGTTGGCATTTTGGTTGAATTTGCTGCCCTGAAATGATATCAGTAAGTATAAGTGGGTGATAGTGGTGTGGGACAACTGAGCCAAAGAAGTCTGGAAAACTGGGGTATTGCCCTGTTAATGTTCCTTGGTTTTAATGCATATTTATCCCTTTCTTTCCCTGCCTCATGCAGGGAATTAAGTCTCTCTTTCTCTGCTGACTCCATGTTAGGAGTGTTTCCTGGCACAAAAGAGTCACAAGCATCTGAATTTTATGAACAAGATCCTAATGAGTGTACGTAATGATCCTTTTAATATATCAGTAGGCAGCAGAAATAGAATCATGACGAGGGGGTTCAGCGTGGGCTAGGATGGCAGCACTGGGGTTTTAAAGTTGAGGTAAACACTTCCCTGTTCATCAGGTTGGGTATCTGGGCTTTTTTCTCAGTGTTTTGTCTCTTCTTACTGTTGCCTGTAAACTGAGAAAACTGGGAATCATTTTTTGGCCACAAACGATAGGGGCTGAGTTGTGTTCTTCCCTGCCAGCCATGTTTGTGTGCATTCACCATCTCTGACCTGACAGAGATCATTTTCTCTAAATAGAAATGAGTATAAGTAGATGAGAGCTTCCTGTATCTTTCCCTTCTTTTGATTTCAGCAGTTTACCTTTAAATATAACTAACTCTAAGTACTTTGGCATTCATTTCTCTGTGACTGTTAGAACACTGTAATGTCAGTTCAGAGTAGATTATTAAGTCTGTTTTGTTCTTAAGCATGTTTAATAACGGTGCTGCAAAGACCTCCCTTGAAACGTGAAGTTAAATGAGAAGTAGTCATGGGAATTGATGGCCCATGCTATTGCCCCAAATGTCTTTCTAATTTTATTTAAGTTATCACTCATGTGATGGAAACCTTTATACTTTAACAAGCCACAGAAACCTGTTCTGTGCTTCTCTTGCAG
Seq C2 exon
CTGAGCGTGCTCTAGACACCATGAACTTTGATGTGATCAAAGGAAAACCCATTCGCATCATGTGGTCTCAGAGGGACCCCTCACTGAGGAAGTCAGGGGTTGGGAACGTTTTCATTAAGAACCTGGACAAATCCATTGATAACAAGGCACTTTATGACACGTTCTCAGCGTTTGGGAATATTTTGTCCTGCAAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000003800:ENSGALT00000006028:1
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion (1st CDS intron)
No structure available
Features
Disorder rate (Iupred):
C1=0.000 A=NA C2=0.000
Domain overlap (PFAM):
C1:
PF0007617=RRM_1=PU(73.2=80.0)
A:
NA
C2:
PF0007617=RRM_1=PD(25.4=27.7),PF0007617=RRM_1=PU(40.6=43.1)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping 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:
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]