Sequence
atgc intronic sequence ATGC exonic sequence...cgaattgttgtgcctttctgttttttttttgtttctccttgtatattatcctccatgattatcactgttgattgataaaattgtgtgttgcattctgcagATAATGATTGGTATCTTATTTTTTCTCTTTGAATTTTATGATGATCAACTATTGGCATTCATGGTCTTAATTCTTGTCTGGTTGTGCGAGCTATTTACAC
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: Vv12s0034g02140.t01 (Vitis vinifera), 3'ss of exon 10
lower sequence: LOC_Os03g45770.1 (Oryza sativa), 3'ss of exon 10
---cga-attgttgtgcctttctgttttt---tttttgtttctccttgtatattatcctccatgattatcactgttgattgataaaattgtgtgttgcattc--tgcagATAATGATTGGTATCTTATTTTTTCTCTTTGAATTTTATGATGATCAACTATTGGCATTCATGGTCTTAATTCTTGTCTGGTTGTGCGAGCTATTTACAC
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gtatgatattttttttccttaatgagctgaaaattttgtggctgtttagatgt-atctactcaacagatttctcatatcttactaatttctttgttgtgatcattgcagATAATGATTGGGATCCTCTTTTTTCTATTTGAGTTCTATGATGATCAGTTGCTTGCATTTCTAGTTTTGACTCTTGTATGGTTGTGTGAGCTATTTACGA
upper sequence: Vv12s0034g02140.t01 (Vitis vinifera), 3'ss of exon 10
lower sequence: GLYMA08G19970.1 (Glycine max), 3'ss of exon 10
-------------cgaattgttgtgcctttct-----gttttttttttgtttctcct---tgtatattatcctccatgattatcactgttgattgataaaattgtgtgttgcattctgcagATAATGATTGGTATCTTATTTTTTCTCTTTGAATTTTATGATGATCAACTATTGGCATTCATGGTCTTAATTCTTGTCTGGTTGTGCGAGCTATTTACAC
||||| | | | ||| | |||| | ||| || || | | | ||| || |||| | ||| ||||||| |||| | ||| |||||||||| |||||||| || | |||||||||||||| |||||||||||||| ||| | || ||||||||||| ||||||||||||||||| || || ||||| |
gtaagcactcattttaattgatttacttttgtcaaaagtttctatttaaattgtctcgtgtttgtgctatttcttatt-ttattagctttg-ctgataaa-ttgtttattgatttctgcagATTATGATTGGCATTCTGTTTTTTCTCTTTGAGTTTTATGATGATCAGCTACTTGCTTTCATGGTCTTGATTCTTGTCTGGTTGTGTGAACTTTTTACTC
upper sequence: Vv12s0034g02140.t01 (Vitis vinifera), 3'ss of exon 10
lower sequence: GLYMA15G05080.1 (Glycine max), 3'ss of exon 10
-------------cgaattgttgtgcctttct-----gttttttttttgtttctcct---tgtatattatcctccatgattatcactgttgattgataaaattgtgtgttgcattctgcagATAATGATTGGTATCTTATTTTTTCTCTTTGAATTTTATGATGATCAACTATTGGCATTCATGGTCTTAATTCTTGTCTGGTTGTGCGAGCTATTTACAC
|||| | | | ||| | |||| | ||| || || | | | ||| || ||| | ||| |||| || ||| | ||| |||||||||| |||||||| || | |||||||||||||| |||||||||||||| ||| | || ||||||||||| ||||||||||||||||| || || ||||| |
gtaagcactcattttaatttatttacttttgtcaaaagtttctatttaaattgtctcgtatttgtgctatttcttatt-ctattagctttg-ctgatgaa-ttgcttattgatttctgcagATTATGATTGGCATTCTGTTTTTTCTCTTTGAGTTTTATGATGATCAGCTACTTGCCTTCATGGTCTTGATTCTTGTCTGGTTGTGTGAACTTTTTACTC atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.ttatcctccatgattatcactgttgattgataaaattgtgtgttgcattctgcagATAATGATTGGTATCTTATTTTTTCTCTTTGAATTTTATGATGATCAACTATTGGCATTCATGGTCTTAATTCTTGTCTGGTTGTGCGAGCTATTTACAC
gattgat putative branch site (score: 4)
ttgattgataaaatt TA-rich tract
Putative cis-regulatory sequences
atgc | intron | ATGC | exonic elements by Pertea et al. |
ATGC | exon | atgc | putative intronic elements |
| | ATGC | putative exonic elements identified for retained introns |
10 20 30 40 50 60 70 80 90 100 110 120 130 140 150 160 170 180 190 200 210 220
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
cgaattgttgtgcctttctgttttttttttgtttctccttgtatattatcctccatgattatcactgttgattgataaaattgtgtgttgcattctgcagATAATGATTGGTATCTTATTTTTTCTCTTTGAATTTTATGATGATCAACTATTGGCATTCATGGTCTTAATTCTTGTCTGGTTGTGCGAGCTATTTACAC
- - - - - tgccttt
- - - - - - - - - - - - - - - - - ctccttg
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - ctgttga
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -gataaaa
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -tgtgtgt