GgaINT0070705 @ galGal3
Intron Retention
Gene
ENSGALG00000010521 | COL25A1
Description
NA
Coordinates
chr4:38935934-38940971:+
Coord C1 exon
chr4:38935934-38935987
Coord A exon
chr4:38935988-38940893
Coord C2 exon
chr4:38940894-38940971
Length
4906 bp
Sequences
Splice sites
5' ss Seq
AAGGTGACC
5' ss Score
6.78
3' ss Seq
AAGTTAATCTTTACAAACAGGGA
3' ss Score
5.33
Exon sequences
Seq C1 exon
GGTTTCCCTGGTCCTCGAGGAGAAAAGGGTGAAATAGGAGAAAAGGGAGAAAAG
Seq A exon
GTGACCGCAGTGTTATTAACTGTTGCTTGGTTCCTTGGCCCAGTCAGCTCTGCTGTCTTTATTCCATAAATCATCCCATTAAACCTGATCTTTGTTTTCCCTGTGTGCCAAAAGGCAGCTCACAGATACACACTAAACAAAATCCCGTGTTAGAAAGATCATGAAAATTTATGCACAGAACGAGTGCTACCAATGAGTGCCAAAGCACAGCTTGTTCTTAGGCTCACTTTCTCCATTCATCCTACACTTGTTGAAAGTCCTTGTCAGCCTGAAACTTTTAATGCAGACATCACTGAAGTGAGTAATTTTGGTAGTAATTTCATACAGGAGACTCAGAGCCTCAGCAGTATTTCAGTGTAACTGCTGACCGCAGTGCACTGTGCCTGCACGCGCTGCCTGTCCCATACCAAGTGGCAAAGGAGGGGAACTGTGCTAATCTTTACTATTGGCAGAGGCTTATTTACAGTTAAGAGAAGTACTCAGTGATGCTTGTGGACTGATATTAAATCTTACACTACATTTCTGGTAAACCGAACAGACAGTGTGGGTAACAGAAGAGACCCGATGTCATTTTCACTGTCCAGAGTGGTGTGAAAATTTGTTCGGTAAAATGCAATGTAGGACCAGAAGTGTGTAAAAAAAGTCTCTCTTCAAACAAGTTGAGACTAGCTAATTTCTAGTTAGATAACTTCAAATTGAAATGTGAAAATTATTATCATGACTAAAACACTGTTGAGAGTGATGCTTGGTTTTCATTGACATGCCTTGATAGGCGAGTAGCCCATTACCTCAGTTTTGAGTATAAATCCTAGGCCAGTGTTTTTTGTTTTAGCCTGTCAACTGCTCAACAGTTAAACTATGTCAGTGTTTGCATTATAGTGCCTGCTTAACTTGGCTGTAAAAAAAAAAAAAAAATCTAGCTCCCATTACTTCTATAAAATTACAGTCCAGGAGCGCTTAGCACAAAAATATTTGTACAATTGGTTCTATATTTTCAAGCTTTATGAATAGAAGTCTATTATTTATTAAAAATCATTTCTTATGTACTANNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNGGGGCAGGACTCTTTTCAGTGCGGCCCAGCAACAGGATAAGAGGCAACGGGCACAAAGTGGAACGTAAGAAGTTCCATATGGACACAAGGAAGAACTTCCTTATGGTAAGAGTGACAGAGCACAGGCTGACAGGCTGCCCAGACATGTTCTGGAGTCTCCTTTTCTGGAGATATTCAAGACCCATCTAGATGCTTTCCTGTGTGACCTGCTGTAGGAAAACTGCTTTAACACGGGGTTGGTTGGACTCTATGATCTCCAGAAGTCTTTTTCAACCCCAACAATTCTGTGACTGGAGACTGTGCCAGCATGCCAGCCATAGCTGTTTTACAGAAGTGCCACAAACTGGTGTTTCTATAGGCAGTGAGGAAGGACAGGAAAGAAACAAATTTTTTTTCTTATTCATCTGCATGACTTTTCATGCTCCATATTTCTGATGGAGCTCTATAGGTCTTGGTAAGAACATTATGTACTTGAGGAGAGCACAGTCCGTGGGAAAACTGGTCAAGTCCTCAGGAACTCAGACTACTCTATGCACGTATGAGTACTGTGTTGGTTCAAATAGGATCACAGGTTTGCCTTGCAAAGCTTCAAGTATAACTAGTCACCTGCTGACTTATAACACAGCAAGTTAATGAAACAGAGGTCCTAAAGACATAAAGGAGTTAGAAATCAAACTGTACTATCTGTTCTTATAATCATTTTTGAAGTATGTCTATGCTCTGTGCTTACATCTACTCACAGTAAACATATCTGTCTTGCAGTGAGCACAAACAGAGATTTGACCCTGAAGCTGTTAAGATTCTGTGCTATAATGCCACGCTTCTAGGTTTAACATGAAAACCCAGCCAACTTGTGCTTTTTATATATCACAGCCTTACAATTTGGTACAGAAGGGTAATGTTTGGTTTTTTTTTTTCTAAGTATCATCCTGAAACTTTTTGGCACACAGAAAAGATAAACAAGGAACTTTGCCTATCACGTCACAAATGCAATGTGTTTTGTTCGCAGAAAAGATATTTTTTCATTTGAATGTGTCAAGTATGCTACGATGCTGAATGAATAATGTGCTTTCCTTTCTATTTAAACAAGTTACAGTGAATTATTTTTTTATTTGTGTAAAAAAAAAAAAAATGCTTTTTCTGTCTGTGAATGAATTAAGACTTTCCATGCTGGTGTGGTACTAGTTAGATGTCTGTTTACTATGCTTCACCAAAACCCATCTGTCTTTCCAAAGGGGCATTCCTTCCTTCTCCTTCTATCTTCATCCTCCTTAATTCCCCTGTCTTTTTTACCCTTTTCCTCGCAAATTAAATCCTCCCAATAGCCACAACCTCGCTTGCTGGTTCTCCAACGTCATACTAATTTTCCTATGACTATTTTTTCCTGTTCCTTTGTGATATTCCTGATTCACTCATCCTTCCTATCCCATTTTTTACAGTCGCAGCCCAATTTGTTTCTTTCTTTTTTTTTTTCTTTTTTTAACTGAACCTTTTTTGATTTTGATGAATTTGAGAGCAAGCCTGAAACTCATTTACCATTGTGATCAACTGGTGTGAAATCAATTAGAAAATGAACTCTCCAAACATCTTATACTGCTTGAAGGTGAGGTCATTTATGCAGGTAGCTTTATTGAAGGGATCAACTCATTCCATGAGTAATTAAAGCACTGGAAGTTTTACATTTAAAAAGAAAATTTAGTTCAAAATCAAAGGACTTATACAGTAAAATGAGTAGATGAAATGCTCTCTGCTGTTGAAAGAACATTTAAATAGAAGTTAAATAAAGATTATTTAAATATTAGGCTGTTTAAATAAAGGCACTCTAATGATCCCTTTTAACTAGTTTGTGGTCTCAAGACATTATGAACTCTTTGAAAGTGCCACGGAACCTTTCCATCAAGCAGTTTGGGTGCTTTGATTCCTCTAACAGGGTTTGAAATAAAGGATCCCATTGTATTTAGAGTGACAGGAGCGCACCCTTGATGATGGCAGCGGGTTTCCGTGGATATAACCAACAATGGGATTTGTCCCAAACTCTTACCAGAGTGCGGGAGGTCAATTCAGCAAAGGATGCACCAGGCCGAGTTTACCCTCTATGTGACATCGTAGCCCTTGACAGAATTCTGCCAGAGACTGACCATACCATCCCTTCTGAAGTTTCAGAGAAACTATGACAGTGTCCTCCACTCTTGCAAAGCTACTTTTGACCCATGACAAATCTCTGAAGAAGCTGACGAATCTATGTGCACTTCAGAACCGTCATTTAGAGCAAATAGGAAACCTCTCATTTTGGACTGCGGAGTGGGGGGATTTGCAGATTCACCTCTATCTGAAAAGATCAGTGATTTCAAGCCCTGTTCTAGGATTCAAAGCATTCATGATACTGACAGGAAATGTCAACAACGCAAACTAATACCAACTGATTGCAGTTCTTGCTTGTGATCATATAATTTATTTTTCCACATAATGCACCAACCAAACCAGAACACAGTGGTAAGTGTCCTTTCAGCTCTCCATTGGCTTAAAAAGAAAAACTCAAACTTTTCAACCAATCTATCTTTATTTTTTTTCCAAAAGAATGAAACATGTTTTGTCCAAACCATTGTATCCACAGGGGGAAAAGGGAAAGAAAGGCAAAAAGGGGCCTAAAGGGGAGAAAGGAGAACAGGGTGCTCCTGGATTAGATGCACCTTGCCCATTGGTACGTCTCGCTTGTGTATTGGATGACTGATCATCCTGCTGTAGATTGATGGAATAAGAAATGAGGGGAGAGGAACAAGCACCACCTAGTGTGTCACCTGTTGCACTTGTTAATGCAGCATTATCTCAAAATTCACAAATTAGGGAACAGAGTTGGTTTTTCAACCTCCGAATTTGGTTTAAAGCATCAGAGTTAAGGCCTTCAAGCAAGGTTTGGTTGTTTTTTTTCATTATTTTCTGCTGAATGTTGGAAAAGAATGAAATTCAGTGTGGGCCAGAGTCCCTGACCCCATAGGTTAAAACTGCACCACTGCTGTGAGCTTGCTCCTCTTGCCTTTCTGTTGTTATTTGTTTGCTCCAACTAAGTCAATACCGAAGGCATTTCCTTGACAGTAACGTTGCAAGTTAATCTTTACAAACAG
Seq C2 exon
GGATTCCGTGGAATTAAGGGGGAAAAAGGGGAGCCAGGCCAGCCTGGCCTGGATGGGCTGGATGCCCCTTGCCAATTG
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000010521:ENSGALT00000017084:28
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(11.2=50.0),PF0139113=Collagen=FE(25.0=100)
A:
NA
C2:
PF0139113=Collagen=FE(36.8=100)
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]