MmuINT0140193 @ mm9
Intron Retention
Gene
ENSMUSG00000026927 | Sdccag3
Description
serologically defined colon cancer antigen 3 [Source:MGI Symbol;Acc:MGI:1915362]
Coordinates
chr2:26243076-26244836:-
Coord C1 exon
chr2:26244669-26244836
Coord A exon
chr2:26243192-26244668
Coord C2 exon
chr2:26243076-26243191
Length
1477 bp
Sequences
Splice sites
5' ss Seq
ACGGTGAGC
5' ss Score
9.44
3' ss Seq
TGTGGTGTTCGTTTTTTCAGGTG
3' ss Score
11.97
Exon sequences
Seq C1 exon
GGCGTTCGGCGCTGGCTTCCGGCCCGCCGAGCCGGATGAGGCAGGGGCCGGCGACTGCCTTGCGGGCCATGGGGCCGCGGCCGGGTTAGGGCGCGGCGATGTCGGGCTACGCGCGGCGGCAGGGCGCGCCCCCTCTATCGCGGACGCGGAGCCTTGTGGTTCCCGACG
Seq A exon
GTGAGCGGCGCGCGGCTGGGGCAGGGCCGGGGGGCGCGGGCGGCGGCGGCCCGCGGTGAAGCCGCTCTCGTTGTCGCTTACAGCTCCTGCGTTCTATGAGCGCCGGTCTTGTCTCCCCCAGCTAGACTGTGAGCGCCCCCATGGCGGGGACCTGCACCCCCATCTCTTCGGCTTTCGGCCGACGTTTATGTGCTATGTGCCCAGCCCGGTGCTGGCTTCGGTAGGAGACACAGGTGAGAGTCGGTCGGGGCGCCGGCCACAGTGCGGAGCTGGGCAGCGCGGGGAGCCCTCCCCACAGCCCGCCCGCCCGCCTCAAGGCAGGAAGGTAGTGCCTGGTGGAGCTCGGAGGCCACTTAAGCCCACCGGCTTGGGCAAGGCCAGGGGCTGGACCTAGCGGGTCTGCGTTCCACCTGCAGCTGCTCTTAGAGCGCGCAGGGATGTGTAGTTTACCGCATCCAGCCTCAGAAGACAGCTTTCTAGTCCCAGACTCAGTGGGAGTCAGGCGTCTGCGGTCTTCACCTCCCTGGACAAACGCTGCAGTCATAAGGCTTGCTGTGATCACGGTGAGCTGACCATGTCTTTTTGCAGGTTTTGGCTATGGAAAGGGGAAATGTACTAACCAAGGTCCTTCGGGAGCCCCTGAGACGCGCTTTGGAGGTAGAGTAGCTCAGTGGGTCTTCTTTCCCTCTTAGACTCAGTGCCTGGCAGGGGTCTGGCCATGGGCTTTCAGGATGACAGGGTTTAAGGGGTATATACCTGGAGCCCAAAAGAGCAGTGGAGCCGGGCAGTGGTGGCGCACGCCTTTAATCCCAGCACTTGGGAGGCAGAGGTAGGCGGATTTCTGAGTTCGAGGTCAGCCTGGTCTACAGAGTGAGTTCCAGGACAGCCAGGGCTACACAGAGAAACCCTGTCTTGAAAAACCAAGAAAAAGAAAAAAGCGACATAAGATGTAGGTGTTATGAGACCCACATAAGCAACTGAGTCTGATAGGTGTGGAGGTAGAGGCTGGTCAACTAGGGTAGTTGGAGAGAAGGTCAGAGGAAGGGATGGCATAGAGCAGTTCCTGAGATGCACTGTGGCATCTCAGCAGCTTTGAATCGCCTACAGTAGCCTTCAGCCCACTGTGTTGTGTGTTTGTGTGTGCGCACAGGGGGTAGTATGTGTAGGGGGGTGGAGTGAAGTCAGCCTCAGCAACCTACAGGCTTTACTGGGGAACTGGGCATATGACTCAGAGGTAGATCAGTTACCTGAATGTGGGTGGACCCCTGGACTTGACCTTTGTTTGGCACAGCATTTTTTGTTTCTTTTAAAGTGGCAAGGGTTGTCTCAAGGAGGCCAAAGGGTGAGAGCCTGCATATTCTCTAACCTCTTTGGCAGCTCTCATGTTCTGTAATGTTCTTTGAGTTACAGTTGAAACGTGATGGTAACACAGGATGTTGGGCCCTTTCACAGTCTTCTGTGGTGTTCGTTTTTTCAG
Seq C2 exon
GTGACAAACTTGAAGACCTTGAAGAAGCCAATCCATTCTCCTTCAAAGAGTTTTTGAAAACCAAGAACCTCAGCCTGTCAAAAGAAGACACGACCACCAGCCGAATTTACCCAAAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000026927-Sdccag3:NM_001085408:1
Average complexity
IR-C
Mappability confidence:
NA
Protein Impact
No protein impact description available
No structure available
Features
Disorder rate (Iupred):
C1=0.757 A=NA C2=0.419
Domain overlap (PFAM):
C1:
NO
A:
NA
C2:
NO
Main Inclusion Isoform:
NA
Other Skipping Isoforms:
NA
Associated events
Conservation
Rat
(rn6)
No conservation detected
Chicken
(galGal4)
No conservation detected
Chicken
(galGal3)
No conservation detected
Zebrafish
(danRer10)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
TTAGGGCGCGGCGATGTC
R:
TTTGGGTAAATTCGGCTGGTGG
Band lengths:
198-1675
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]
Other AS DBs: