GgaINT0110678 @ galGal3
Intron Retention
Gene
ENSGALG00000017142 | PSPC1
Description
NA
Coordinates
chr1:183498107-183501933:+
Coord C1 exon
chr1:183498107-183498276
Coord A exon
chr1:183498277-183501460
Coord C2 exon
chr1:183501461-183501933
Length
3184 bp
Sequences
Splice sites
5' ss Seq
GTGGTAACG
5' ss Score
4.76
3' ss Seq
TCCAAATGGACTTGTTTTAGCAT
3' ss Score
4.55
Exon sequences
Seq C1 exon
ATGCGTTTAGCCCAGCACCTGCTGGTAACCAAGGCCCTCCTCCAATGATGGGTATGAATATGAACAACAGAGGAACTTTGCCTGGCCCTGCAATGGGTCCTGGTCCTTCCATGGGACCAGAAGGAGCTGCAAATATGGGAACACCAATGATGCCAGATAATGGAACAGTG
Seq A exon
GTAACGTATCACAAATTTAATTACTTTGAATAGCTGTCATGTCTCATGGCACATTTTTGTTACCAAAGATATTTTCACACTGAATAAGGCCACGTTAAATGTTTTGACTTTGTTAAAAGTAATTGGTAAGACTTGTCCACTGAAATAAATTACAGTGCAGATGGAAAATGTTCCGTATTAGAATAGAATTAGGAAAATTCCACTTCAGGTGAAGAGGAAGTTCTTTGATCAGTAACCAAACTTTTAAAATTGAGATTAGATTGCACAGTACTTGTGGTAATCCTTACGGTGTATAACCTGTCCTGAAAAATGATGACAAAGGGAAATTAGACATGAAGAGACATCCATATACCTGAGTAATCTGTAAACTTAGGCTTCTGCTGCTTTTTTTCTTTTGTAAAACTAGGTTGTTACCAGCTTTTTTTTAATAAGTGTTGGAAGCTGTGCATAGTGTGAAGATATCTTTGTGTAAACTACTCGATCTTTTAATGTGACCTTAGTATTTTCTATTTCCTTCCTAATGGTGTTCAAAGCACAAGTTTGATGGTAATCACTTGGAAAACTTGGAAAGTATGCCAACAGCTGCTAGGCATAACTGTCAGGTCATTGCAGGAAAGGAATATTGCCCAGTTGCTGAAGGTACTATGAGTGTGTAGGACAGACATCTGGATTTCTTTTATTGAGAGCAGATATGCCATTGGCCTGCAATTAGAGCACTAGCTATTTTTGCTCTGGTCTTACAGCCAGTCACTTTTCCTAGCTGTAATGTCTTATGTAGAGAAACAACTATATCATTTTAGATCTCACATTTACATACCTTTAAATATTCTTCTGTAAATAGATGTGTGAGATGTTCTAGTGGTGTGCTAGAAAGAAGTATGAAGTACAGCAGTGATTCCATTGTAATTTCATTGGAACACTGAAGCATTTGGTAGCTGTAGTTTATGTAGACCTTCTAAATGGTATCAGTATGTGACTGAGGTATCCATATAATGAAGCTGGGACAAAATCCTTTGTTCCTTAAGGGAAGATGAGATTTTGAGTGCAAAATATATGATGACTCTGTTCTTTCCTAGTGAGAGCAGTTGATTGTGCTTCATATCATGACTGGCTTGTTTTATCCGTTCCGTAGTTTGTCACAAGGATGGGGGACAGGTTGCACTCTTGAAAGAATACTGTCGGCAAAGATGCTTGTACTGGAAACTCCTGTGTTACTGACCAGTCACCTCTGGAACATTATTTTGTGGTTATATAGATGCTGAAAAGAGGTGTGAGAAAAAAACCTGGAGTTGTAAATCATGTAATCTATCTGAAATTGTTGTTTTTCTACAAAGTCATTCCAGTTACGGAAGTGCAGGGAAGGGCATTTACAGGCTTTACAAAATACATACTAAATATAAAACAGTTATCTTTCATTTTCTTCTGTGTGTTACTGAAGGACAAATTAGATGCCCTTTCATTTTGGATTTTAAATTTTAGTCTGTGGACAGACACCTGCAGAAGGGTATGTCCTCCTTGCGTTTTTGTTGCCACTGGAAAGACGCTTCAGAGATTGTCTGAGCTCTGTCTCCTGAGGCACTGTGAGAGTTGCTTTCCGTTCTCTGGAGAGGAACAGAGGATACGATTTATAGACCAGAAGTGTAATTTTCATTTTTAAATTTGACTTTGAATTTTGTTAGGTAGATTTTTTTTATTGTTCTACTGCTATTTTTAAAATATCTTTGAACATAATGATTAAAAATAGCTTCTTCCCCTGTACTTTATTGTAGGTAGGTAATTAGTGCAGTTTTCTCTTTAACTGGTTGTCCTTGTTAGAAAGAGTTGTTTCTTTGCCCAATAATGAAGTGGTAAATATGACCATGAGTATGTGGTAAGCATGTGTTGGAGTTCATATCCAGTGCTACCAAGCTGTATTCATTTAAGGTACTTTTCTAAACAAATTCCAACTAGTGCTGTAGATTTTAGGGTAATTTGGGACATTAGCAGATCTTTATGCAGCTGTTGAAGTATTGTTTCTTATACGATATATCAGCTTTTAAGTAATGTACATATATGCACAACCATGATCTAAATTATATAAAATTAATATAGATACCAGTATGTATTTATCATTTAAGTGCCTTTGGAACTCTTGAGCCCTACTATTATTACTGGAGTTAGACTTTCGGAAGAATTATTCTGTTTCAGGCATATAAATGAAGTAGTAGTTATTAATGCTCTTTTTGAACTCTCAGTACCTGGGCAGTTGTATGGTTCTCTGTTCAGAGGAAGTTCTTCTGAAAGTGTAACTGTCTTCAGTGGCTGAAGAGTTATTTCAAAATCTGTTTATACCATACATCTATGCATTTAATGGTTTGTCTCATTCTGAGGTAATGTTTTATACTTCATCACGTGGAATTCTGTTTTTAAACACTTATATGGTGAACTATAAGTATTCAGGTGCATGTTTTTTGTTTCAAGTCTTTATTGCTTAGCCAAGTAAGTCTAAGTACATATATCCTTGTTTATGTTGGGTATGGAACTAAGGAACATGTGGAACATTAACTGGATTTTCATCTTTTATTCATATTTCACATTGTACTTTATTTTTGAACGAAGCATAGTCTACCTATGCATTTTATAACTGGTATATTTAATTTGGGCTTTAAAAGTCTATTTAAAGATTACTAAAGTGCATTACAAAAGGCTGACTCCAGGTCCTGTGGACTGAAATACACTTAAACTGCAAATAGGTGGATATGTAAGATATAAGATTGTTTCACTATTAAAAGAATAAACCCGCAGTCTCTAGAAATACGGAAGTTGAACTTTTTCTAGTTTAACAATGTCTAACTTAATAGAGAAGTATTGTGGTTGGTATATAAGGCACAAATAGACTAGGGTATAAAATTACTGTTTACTCTTCTGTTACATAGAATATATGTACTGCTTTGTGTTGAGCACCAGAGTTGGTCTTAATTAAAAACTATAGAATTTACTTTACAAAGTTGGAGCGTAACGTTAGCAGTCTCTGATTTCCAGATCCTTTTTGATAATAACTAATTGAATTGCTCCTTTCTTCCCTCTATGTGTGATCCTGATTCTGCTGGACTATCTGCTGAACTTCCTGACAACATCACTTGTGTAACTTGCATCACTTTTGTTGTACCTTACATTTGGCGTGTTCCAAATGGACTTGTTTTAG
Seq C2 exon
CATAATGAGAGATTCCCTCAAGGAGGTCCATCACAGATGGGCTCACCTCTGGTTAGTAGAACGGGCTCCGAAACTCCTCAGCCGCCAATGAGTGGCGTAGGTACCGTGAGTGGTGGACCTGGTGGCTTTGGTAGAGGAAACCCAGGGGGCAACTTTGAAGGACCTAACAAGCGTCGCAGATACTAAAACTTACTTCATTCCTTGCTGTTAAGAAATTCCAGTAAACATATACAGTGATATGCTTTTATAATTTTAGCTGTTATCTGGAAACGGTTTTATTGTTACTGTAGTCTTTAAAACAGTTTCTTTTGTAAAACTTTTTTGTATTCAGTCATAGGCTTTGTAGTATAGAGCAGAAATTATGCAGATCATTATGTAAGGCAATGTGTTTGTGACTAGCAAAATACAGTGTGTGACTATGCTGTAAAACATGCGGTTATCTGATTACAATAAAATATAAAATTCTCTTGAAA
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000017142:ENSGALT00000036438:9
Average complexity
IR
Mappability confidence:
NA
Protein Impact
Alternative protein isoforms
No structure available
Features
Disorder rate (Iupred):
C1=1.000 A=NA C2=1.000
Domain overlap (PFAM):
C1:
NO
A:
NA
C2:
NO
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Associated events
Other assemblies
Conservation
Human
(hg38)
No conservation detected
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]