GgaINT0070693 @ galGal3
Intron Retention
Gene
ENSGALG00000010521 | COL25A1
Description
NA
Coordinates
chr4:38915242-38918416:+
Coord C1 exon
chr4:38915242-38915319
Coord A exon
chr4:38915320-38918392
Coord C2 exon
chr4:38918393-38918416
Length
3073 bp
Sequences
Splice sites
5' ss Seq
CAGGTACGT
5' ss Score
10.65
3' ss Seq
TTAATGCATTTTGCCAACAGAGG
3' ss Score
5.75
Exon sequences
Seq C1 exon
GGGCCACCTGGACAGAAGGGTGATCAAGGTGCTACAGAGATAATTGATTATAATGGCAATATTCATGAAGCTCTTCAG
Seq A exon
GTACGTAAACTTAACAAGGCTGGAATAGTTTAGCCTGGTCTGCCAAGAAACAGTTTGACGTCATTGTATTTTCCTTCTGCATAAACCATGAGAACACTATTTTTCCCCAATGATTTGCCGAGTTTACTGATGAGGAATGTCTTTCTATATTTGGAAACCAGACTTGCTATTTGATGTGAGAAAAACTGTTTCCTTGATACAATTTAGCTGAGTGAATTAGTCCCATTTCCCACAGAGCATATTGACATCATCTAATGAGAATAAAGCTGATTCATTGCTGCGTGGGGGTTAGTGCTGAATTCATGCAGTAAACCACATACATAAGTTCAACAGAAGCATCTGCTTTTCAGTTCAATAGCTAAAATGTTGACATTTCTTTTTTCCTCTTTTCCCTTCTCCTCTTCCTATAAAATGCAGAGAGCAGAATATTTGAGATTTGGAAACCATAACACGAGTGGTTCCATTAGAAAGCTGTGGATTCAATCAGCAACTTGAGTATCTTAAATAGACAAAGCACCAATCTTCCCACTTGTTCATTTCTAGAAACCTGTTTTGACAGGTATGCACAAAACTATGGAGGATTAAAGTGGGGTTGCAAAAAGAATGAATGAGTGTTTGTATGAAAGTAAAGTAACAAGATGACATATGTAGTTGCAGTCAAGGTGATTTACATTGCAGTGTAGTCAGATGCAAATTCTGTGCAACACAACTCCACCAAAATGAATGGGTTTGCTTATGTGCAGCTGAAGACAGAACTTGGCTCATTGTGCATCTGATCATTTTCTCACTGAATCCAATGAACTCTTTTTCTTGCATTTACTCAGTGGGAGTGGATAGATGTCTGGCCAGTCATGTGCTTTTCAAGACCCCTTTGAAAATAAAATAAAAAAAACCTCACTGCCTTTAGTAAAAATCTAAAAGCCCATATGTTTTTGAAGCTAAGTCCACTCTCATTGTGAGTGGCATCTGTGGGGAAGTCTATATAGGCATGTTCTGGGGCTCTGCATTGTACCCCTCTCGTTTGCTTCACCCCTAAGGGAATTTAAAGACACATTTTTCAGTCTTTTAAATCAATCTCAGTGTTAGATGCCTGAAGTAGCTTGAAAGTAATGTAGTATATTATCAGGCACAGATTTACCAGGGGCTTTCACCCCCACATTTCCTGTATTCTGTCTTTATATCTTCACTCTGGCATCAGTGTTACTTTCAAGTGCTGTGTGAGAACACCTCAGAAAAGCTGCAGCACATAAAGAAGCCTTAATAAGGGACTAAAGCCTACTGCAGTGATTGAAACAGATGAGGAGGCCTTTTTCCTTTTGTAAATCATTTCAAATGTCATCACCTTCTGATCCAGGGCAACAAATAATTGATATCAATGGGAACGTCTGTGCAAGGATGGTGTAAGTAAGATTATATAGGATCAGTCAGTGATATCCTTGCCAAATCCAGCTCAGGCCTTTCAGATGGCAAGCACCCATTCCTAAGTCTCCTGGTGCCAAATTCTTAGGGGATCTGAGATTTGCAGCTCTCCCATAGAGGTATTGAGCACTTTCAGCTCTCAGCACAGAACTGTGACCTTACACAGAATTTGGTCTGCTGACTTAAGAAGTTGACAAGAGTTAGCAAGATCTAGGCTGTCTGCATTTCTTAGAATTTAGCAATAAATCATCAAGCAGCCCAGAAGCTTTAGGATAATTTAGTTACTCTGCCTTGTGCCTACTGCTCAATCTCCTGTGTCAGTGCAGAATGAGACATCTGAGTCCATCAGCACTGGAAATAAGGATCTTAAAATTGTCATCACAGTTTGAGCAAGAGCCCTGCTGAGTGCATGTGACTTTAACTTGTAGTACCAAATACAAAATGCATCTCTATCAAAATTGCTCTCCAGGCCTGCTCCTCGGAATTTCCTAAGGCAAAAGACAGTAGCTGCAGGAGTTTAACTTTTGTAGAGGATCAGACTCTTTAGATATTGAAATCTGAATGTGCTGATGCAAATGAGCCTGTCAGTGTGATCATGCCAGCATTCATTTGCAATGGTTATTTTATGTTTTCATCTCTATCTAAACTGAATTTTTCAGCTTTTAAAAATCTTTATATATTCCCATAAATACGTTACAATGCAACATATATGATTATATTAAAGTCATCTGTTAGAGAACATTCTTCTTTTTTTCTTTTTTATGTTCTTCGTATCGAGCAGGCTCCAATTTTCATGGTAAATGAAGATTCTTTTAGAACTTATAAACAGGATTTGCAAACCATCCATTTGCACATAGGAAAAGAGTTAAAAGCTAAATGCTGCTCGTTCCATATATGCCAGAAGGTTCTTCACAGTTAATAGGAATGCAAAGAGAGGCATCAGGATTCAGGGTGTTTATTTTCTTTAAAAACATGGACAAGCATTTTAATTATTTTCAAACACTTTTTCACTTGCTTTTAGATTCTTATTTGTCCAAAAAATACAGTAGTGGATCAAGCTATAAAATAATAACAGAATTCATAGTAATTGATAAAAGAAGCCTGTTGTCTTTCCAAACATTTAAAGCAGAATTCAAAGTACTTACCACTGCTTTTGTGGATCAGCATTTTCAGATTTAGAACCTAACTTTATTTTTGTATCTTAGTTTCTGTATTAAAAAACATGTTATACTTCTACTGTAGGAATTGTATTTGTTAGTTAAACCTTGGTGCAAGACTTGCAGAGATCCCAAAACATGGGACAAGTCTTTTAATCATCCTAAGAGACCAATTCATCCCATTTTATTTAGTTCCTAAAAATCTTTTGGAAGACTTTTACTGTGATTTTACTGTTTAATCATCACTTACTCAATCACTTGAAATTTACAAGAAACTACAGTCCTCACCTATGTAAAATCCTGATTGCCCTAGAAGCCAAACTGTGCGGCACTGGCAGTTAAGAATAACAGTGCTTTCACTCTTATTTTTTGGAGACATGGTGTCTCCCCAGATGCAGTATAGGTTTTGTGGAGATACTAATTTTTACAAGCAGAATAATTTATATCCTTGTTCAATTTTGGTAATGTTGTCTCTTGTTAATGCATTTTGCCAACAG
Seq C2 exon
AGGATTGCCACCCTCACTGTCACG
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000010521:ENSGALT00000017084:16
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=1.000 A=NA C2=1.000
Domain overlap (PFAM):
C1:
PF0139113=Collagen=PD(20.0=46.2)
A:
NA
C2:
PF0139113=Collagen=PU(1.7=12.5)
Main Inclusion Isoform:
NA
Other Inclusion 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]