MmuINT0064059 @ mm9
Intron Retention
Gene
ENSMUSG00000028001 | Fga
Description
fibrinogen alpha chain [Source:MGI Symbol;Acc:MGI:1316726]
Coordinates
chr3:82834755-82837539:+
Coord C1 exon
chr3:82834755-82835901
Coord A exon
chr3:82835902-82836622
Coord C2 exon
chr3:82836623-82837539
Length
721 bp
Sequences
Splice sites
5' ss Seq
GAGGTATCG
5' ss Score
8.1
3' ss Seq
AGCTTAATTTTTTTTTTTAGACT
3' ss Score
7.99
Exon sequences
Seq C1 exon
GTGGATATTGATATCAAGATCCGCTCTTGCAAAGGGTCCTGCAGCAGGGCTGTAAACCGTGAGATAAATCTACAGGACTATGAAGGTCACCAAAAACAGCTTCAACAGGTCATCGCTAAAGAATTGCTTCCTACAAAAGACAGGCAGTACTTGCCAGCACTAAAAATGTCTCCAGTTCCCGACTTGGTTCCCGGAAGTTTTAAGAGCCAGCTTCAGGAGGCCCCTCCAGAGTGGAAGGCATTAACAGAAATGCGGCAGATGAGAATGGAGCTGGAGAGACCTGGGAAGGATGGGGGTTCGCGAGGAGATTCACCAGGAGACTCGCGGGGAGATTCTAGAGGGGACTTTGCAACACGTGGACCAGGGTCAAAGGCAGAAAACCCCACGAACCCTGGACCTGGTGGATCTGGGTATTGGCGTCCTGGGAACTCCGGGTCTGGAAGTGATGGAAATCGGAACCCTGGGACCACGGGGTCTGATGGCACTGGAGACTGGGGTACCGGAAGCCCTAGACCTGGCTCAGACTCTGGGAACTTTAGGCCTGCCAACCCTAACTGGGGTGTGTTTTCAGAGTTTGGAGACAGTAGCAGCCCAGCCACAAGAAAAGAGTATCACACAGGTAAAGCGGTCACTTCTAAAGGAGATAAAGAGCTCCTGATTGGAAAGGAGAAAGTCACCTCTTCTGGCACAAGCACCACACATCGTTCATGCTCTAAAACCATTACCAAGACTGTCACAGGTCCTGATGGTCGCCGAGAAGTGGTCAAAGAAGTGATCACCTCGGATGATGGCTCAGACTGTGGCGATGCCACCGAGTTAGACATATCCCACAGTTTTAGCGGCAGTCTCGACGAACTCTCTGAAAGGCATCCTGACCTTTCTGGGTTTTTTGACAACCACTTTGGTTTAATCTCACCTAACTTCAAAGAATTTGGCAGTAAGACCCATTCTGATTCCGACATCCTCACAAACATTGAGGACCCCAGCTCCCATGTACCTGAGTTTTCTTCCAGTAGTAAAACCTCAACTGTCAAAAAACAAGTAACCAAGACCTATAAAATGGCAGACGAGGCAGGAAGCGAAGCTCACCGGGAAGGAGAAACTCGCAACACTAAGAGGGGCCGTGCCAGAGCTCGCCCAACGAGAG
Seq A exon
GTATCGACACTTAACTTTCGGGAGATTCCCCTGACACCCCCCCCCCCCCTAGATTAAGTTAACCATTACTGCGAAGTGCTTACCAGGCACGCTGCACCCGTTTCCTAACCTCCTTTAGTGTTTTGTTGGAATCTCATTTTTTTTTTGGTCAACTTTTCATGCTAGACTGTACGTTCCTTGGGGGCAGGGACTTGACCATGTGTCTATTTCTGTAATTCCCAAATGCCTAACAGTGCAGTCATTTCTCAATAAATACATTTTAAATAAATGAACAAATTCTGCCGAAACTCAGTTCTGAGTCTGTTTAACCGAATTCATTCAAAACGTGTGCGATTGTAATACCCAACCCCCTAACCTTAAATTTAGTGTATGTTGCAGTTGACATTTAGATCAGGTTAAAAACTGTGTTCCATTAGTATGGACTGATGAATGCTTAGCTAGCTTTAAACTATCATTTGAGATTAGCATGGACACGTAAGATTTCAAATCCATTTGAAGAGAGGTTGCTAAAGGATGAGTATCCTTTACCTGCTAAAAAATTACATCTCATTGTAGGTGCATCCTTTTCGTGTGGGAGGAGGGAAGGAAGGGAGGAAGGAAGACAGGCAGGCAGGCAGACAGACAGGCAGGTAGGCAGTAGCTACTTCAATCTGGGTGATGCCTATCTTTGCATATTTAAATGAGAATAACTTCCTCCAACCAGCTTAATTTTTTTTTTTAG
Seq C2 exon
ACTGTGATGATGTCCTCCAAACACAAACTTCAGGTGCCCAAAATGGCATTTTCAGTATCAAGCCACCTGGATCCAGTAAGGTTTTTTCTGTTTATTGCGATCAAGAGACCAGTTTGGGAGGATGGCTTTTGATCCAGCAAAGAATGGATGGATCGCTGAATTTTAACCGGACCTGGCAAGACTACAAGAGAGGTTTCGGCAGCCTGAATGACAAAGGGGAAGGAGAATTCTGGCTAGGCAATGACTACCTCCACTTACTCACTCTGAGGGGCTCAGTTCTCAGGGTTGAATTAGAGGACTGGGCTGGAAAAGAGGCTTATGCGGAGTACCACTTCCGGGTAGGCTCTGAGGCAGAGGGCTACGCGCTGCAGGTCTCCTCCTACCGGGGCACTGCTGGAGATGCTCTGGTGCAGGGCTCTGTGGAGGAGGGGACAGAATACACCTCACACAGCAACATGCAGTTCAGTACCTTTGACAGAGATGCCGACCAATGGGAAGAGAACTGTGCAGAGGTCTATGGGGGAGGCTGGTGGTACAACAGCTGTCAGGCCGCCAATCTCAATGGCATTTACTACCCCGGGGGCACCTACGATCCCAGGAACAACAGCCCCTATGAGATAGAGAACGGGGTGGTCTGGGTTCCCTTCAGAGGAGCAGATTATTCCCTCAGGGCCGTTCGGATGAAAATCAGACCGCTGGTGGGACAATAGCTGAAGGGTTAGAAAGTGGGGGCTCTGTTTTCTTTGCTCGGTTATCCGAGAAGAAAGACAAAACGGAAGATGAAGGTGTCACGGATCTTGTGAACTTTTTAAAACTTTCAAGGTGCTATTCCATTGTTCTTTGTACTGTAGCTAAATGTAACTGAGATGAGTTACTGCTTTGAAAAAATAAAGTTTTACATTTTTTCCACCCTTTAA
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000028001-Fga:NM_001111048:5
Average complexity
IR-S
Mappability confidence:
NA
Protein Impact
No protein impact description available
No structure available
Features
Disorder rate (Iupred):
C1=0.846 A=NA C2=0.059
Domain overlap (PFAM):
C1:
PF087025=Fib_alpha=PD(15.6=6.0),PF121603=Fibrinogen_aC=WD(100=17.5),PF0014713=Fibrinogen_C=PU(1.3=0.8)
A:
NA
C2:
PF0014713=Fibrinogen_C=PD(98.3=97.9)
Other Inclusion Isoforms:
NA
Associated events
Conservation
Human
(hg38)
No conservation detected
Rat
(rn6)
No conservation detected
Zebrafish
(danRer10)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
CCAGCTCCCATGTACCTGAGT
R:
CTTGTAGTCTTGCCAGGTCCG
Band lengths:
353-1074
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]
Other AS DBs: