GgaINT0043058 @ galGal3
Intron Retention
Gene
ENSGALG00000004286 | COL13A1
Description
NA
Coordinates
chr6:12113580-12116724:+
Coord C1 exon
chr6:12113580-12113645
Coord A exon
chr6:12113646-12116607
Coord C2 exon
chr6:12116608-12116724
Length
2962 bp
Sequences
Splice sites
5' ss Seq
CAGGTAGAC
5' ss Score
6.89
3' ss Seq
CTTCTCTTAACAAACCTCAGGGT
3' ss Score
5.2
Exon sequences
Seq C1 exon
CTGTTGCCTCTCCTCAATTCAGTGCGGCTGGCTCCACCTCCGGTCATAAAGAGACGCACTTTCCAG
Seq A exon
GTAGACCTCTCCTTGTTGCCTGTTTCTAAGCCTGTTCTGATGCTTGTGATTAGTCGGCTTACTACCTGTCTGTCTTTCCCTACAAAGGGGCTTCCAAGGCGCTGGGGCAGAGCTGAGGGGTGTTGTTTGAAGTGGGGGAAATCTTTGATGTGATAATGTGGCTAAAAAGAAACACAGCGGAGCCTGTGCTTAAATCTAAAAGAAATGGGCCATGAAACTGCAGCCAGGACTGTTGACAGGCAGTCTCCTACTTTACGGAGTCGGGTCCTGCATATTCAATCTCCAGAAGAGGTTGGAAACCTCTTGCTGAAATGTAGCTAATGTCTGTGGAGTTGAACTGAGATGAATAAATAGCAAACATTTCTGAGGGCTGGTCTGGTCTGAGACACTGGGGAAAGCGTGTTTAAATAAGCTCTTATAATGATTTCATTAAATTGTATTAAATCTTTGTGTAAACACATTTATTTTGGTTTCCAGGGCCATAACTCATGTTCAGTTTAGTTATTTTGGTAATTAATTCATAAAATGAATTACGGAAGTATGAATAGTGAGTAAGAGCGTCCATAGTCAGAGTTAATGTGGCTTTTAATGAACCCACTTGAAGCATCCCCATTCCATCAGTTGGGATGGACTTTCCTGTGTGAGTAAACCGCTGTAATTACCCCACTGAAGTGTGCTGGGCACCCTCTATGAAGCGGCTGAGTTTTGTCACCCTGCTGTCTGAACTGCCAGATGCTAGCAGGGCACTGCAGTGCCACGAGGTGCCTTCCCAGTGCTGTGTGAAATCCTGGTGTTATCACTTGAGCCTGCGCTCTCAGCCCAGTTCCTATCAGCTCAACGTTCACACTGCATAAAGCCCCACGGCTTGCGCGGGTTGGCCTTCAAAGTAACAGTCCGAAGAGCCAGGCCAAGGGCTGACCTCTTGGGAAGGCTTTGAAAGCCGAAGTTCCTATCCAGGATGAAGTGGGAAACTTGAATAGCTGCCCCATGTCCTGTCATCAGCCAGGGCTGCAAATTCCCTCCATCCCCAGAGGCCAGCTTCACTAGAGAATTCTGCTGTGATGTTTTGCTGCTGCCTTATTCATTCTCTAAGTGAGACAAAGTGTAAACCACTCCTACAGATCTGCCAGCACCAAGCAATTCCAGGAGCTCGACATTTGAATACTAAGAAAAAACACAAGGCTGTAAAGTAAATGCTAATGCTTGAGGGAAGAAAACCCTGCTGCTACCTCTGAGTACATCAGCAGGAGCCCTTTGTGTATGGGCTTGGGATGAGCAAAGGCTGTGTTAGGAGGCTCCATGAGCATTGCATTGATGAAGCACAACGAGGGTGACTAAATGGAGTTTTAAAGAGCTGAAGAATGCAGCAGCTAAAAATACAGGCTGACATCTGATGACTGTGACACCTGATCTCCAACTTACAGTATCCACTTACAGTCCAGTTAGATCGGCGGGGTCTTTTCATGCTGAATGCATTAATAAGAACATAATGATGTGGCAATAACGTTTTGTGTGGTTAGGGATCTGAGTGGATGGGCATGCGCTTACACTGTGCTGTGCTAGATGCAGCTGAACAAAGGCAACATGAATGGGGCTTGGTGAGCTCCCACTGGTGCTCCCATGCAGAGGCAGGGCTTCTGCTCCCCCCATCTCCCTGTCCTTTGCTTGGGGGACAGCATATGTGCCCAGTTACTGAACCTCCCATAAGCCTGGCCCACACCTTGGAAATTTTCTTCCAAATAGAGCTCATGGCAGAAAGGACAAAATCTGCATCTTATTTCTTTCATGTAGAATTCTAAATAAAACAGACGTCCCCGTATCTCCTTGTTTTACTATGGGCAGCCAGAATAAACAACACCATGGTTAGGAACACATGCAGGGGACAGATTTTGTGCATTGCTGTGCACACAAGGCTGTGTGACAGCAGCCTTGGCTTTACCCAGCAGCAGCATTGAGAGGACAAATGCAACAGAGACTCAACCACATGCCCATCAATTTACAATTAATCACCATGTTTGATTTCTAGTTTCCTGTGGAAGAGGGGTTTTTCAGATGGAAGCAGGATGTTGTGATATTTTATCTGGGCAGGGCAGTCCGTGAGACAGCAGCTTAGCGTGGGCGCCATGGGGCCGTAGGAGTTTGCTGGATACATCAATTATAGATCAGCAGTCTGGTATTCAGCGTGGTGCTTCCAACCCACTGTCTCCGCAGCGCCGCTTGGTCCAGAGTGCTGGTCCTTTGGGCCAGATGGCATTGCTGAGGCATGAGCCACAGCCACTGAGTGGCTACTGATGGGCCTGGGGAGGAACCGGCTGGAATGGCTTTCCTTCGAGAGCTTAAAATGGCAGGTGGCTTTGCATGCACTTGCTTGTTAAATCTTACAGAAACAGGCTCTGCCTGGCGACATAGGCCTGCTTTGGGTGAGCTCCAGAAATTCCATGATGATCGTGTTATTTTCTTTCGGTTTTGTGGCATTTCTACTTTTGGTCCTTGGAAAAACAGCAGGAGTGTTGCCCAACAAATAGAGCAGAGGGGGAAAAAATAGGCTGAGGTAAGATTCTGCGGCTTTGCCAGGAAGTGCCAGCGTGGTCACGAGAGACTTTGCTTCACATGTGACTGTCAAGTGCTTTGTAGAGCCTCTTGAGAAGCCCAAGAGACATTGGCATTTGACGTGCAAAGTGTTTGGACTGCTTGGCCACCTGTAGATCACTTGTAAGGCAAGCTCTGAGAAGGTGGCCTTGGATGTCTTTGCAAACCTTGGGGTGCTGTCTCCTCCTGCCAGGGCAGCCAGACTGTCCTTGGCAGGGCTCTGCCTCACTCTTGGAAGCCTCTCCAGGCACTAACCTGGGGCTTTTCTTCTGCCTCTTCTGCTTCAGCCACGCTCACCCGCCTTGTGCCCTTGTGGTGGCGGTGTGTTGAGTTGGCTCTGCCTGCTGGTAACTCTTCTCTTAACAAACCTCAG
Seq C2 exon
GGTGAACAAGGACAAGCAGGAATCCAAGGTCCTCCGGGGCCACCCGGCCCGCCAGGGCCTGCTGGACCAGCTGGACCCGAGGGAACCCCAGGACAGCCTGGACCGATTGGGCCACCT
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000004286:ENSGALT00000006816:12
Average complexity
IR
Mappability confidence:
NA
Protein Impact
No protein impact description available
No structure available
Features
Disorder rate (Iupred):
C1=0.909 A=NA C2=1.000
Domain overlap (PFAM):
C1:
PF0139113=Collagen=FE(70.4=100),PF0139113=Collagen=PU(13.6=20.5)
A:
NA
C2:
PF0139113=Collagen=FE(59.4=100),PF0139113=Collagen=PU(14.7=35.9)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Associated events
Conservation
Rat
(rn6)
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]