Sequence
atgc intronic sequence ATGC exonic sequencegtactgttcctcttttaaactggtaacctgctggctggtttctttccctttgttgctaaatctattctttcttatgcagATTGAAGTGGAAACTGTTGATAGAACTGGAACTTTCTTGGGATCTCTATGGGAGGCAAAAACCAACATGGCAGTGACACTTCTTGAGGCTGGACTAGCAA
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: Vv00s0283g00020.t01 (Vitis vinifera), 3'ss of exon 12
lower sequence: GLYMA05G33320.1 (Glycine max), 3'ss of exon 12
---gtactgttcctcttttaaactggtaacctgctggctggtttctttccctttgttgctaaa-tctattctttcttatgcagATTGAAGTGGAAACTGTTGATAGAACTGGAACTTTCTTGGGATCTCTATGGGAGGCAAAAACCAACATGGCAGTGACACTTCTTGAGGCTGGACTAGCAA
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gtaattaggtttcctctgtaaact--taaattcctccatgttgtcaatttttttcttaataaaatatattttttaattttcagATTGAGGTAGAGACTGTTGACAGAACTGGAACTTTCTTGGGTTCCTTATGGGAGTCAAGGACCAATATGGCAATTACACTGCTCGAAGCTGGTCTTGCAA
upper sequence: Vv00s0283g00020.t01 (Vitis vinifera), 3'ss of exon 12
lower sequence: GLYMA04G38010.1 (Glycine max), 3'ss of exon 12
--gtactgttcctcttttaaactggtaacctgctggctggtttctttccctttgttgctaaatctattctttcttatgcagATTGAAGTGGAAACTGTTGATAGAACTGGAACTTTCTTGGGATCTCTATGGGAGGCAAAAACCAACATGGCAGTGACACTTCTTGAGGCTGGACTAGCAA
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gtaaatcaattcctttctgaactt-taggttcctgtatgctgcttat---tttattgttaaatattttgtattgtttgcagATAGAGGTTGAAACCGTTGATAGAACTGGAACGTTCTTGGGATCCTTATGGGAGTCGAGGACCAATGTGGCAATTACACTGCTTGAAGCTGGTCTTGCAA
upper sequence: Vv00s0283g00020.t01 (Vitis vinifera), 3'ss of exon 12
lower sequence: GLYMA08G00910.1 (Glycine max), 3'ss of exon 12
---gtactgttcctcttttaaactggtaacctgctggctggtttctttccctttgttgctaaa-tctattctttcttatgcagATTGAAGTGGAAACTGTTGATAGAACTGGAACTTTCTTGGGATCTCTATGGGAGGCAAAAACCAACATGGCAGTGACACTTCTTGAGGCTGGACTAGCAA
| ||| | | |||||| || || || | || | ||| || |||| | |||| ||| | | |||||||| || || |||||||| ||||||||||||||||||| || |||||||| ||| ||||| |||||| | ||||| || || ||||| || ||||
gtaattaggtttcatctgtaaacttaaaattc-ctccatgttgtcaatttttttcttaataaaatatattttttaattttcagATTGAGGTAGAGACTGTTGACCGAACTGGAACTTTCTTGGGTTCCTTATGGGAGTCAAGGACCAATATGGCAATTACACTGCTCGAAGCTGGTCTTGCAA
upper sequence: Vv00s0283g00020.t01 (Vitis vinifera), 3'ss of exon 12
lower sequence: GLYMA06G17050.4 (Glycine max), 3'ss of exon 12
--gtactgttcctcttttaaactggtaacctgctggctggtttctttccctttgttgctaaatctattctttcttatgcagATTGAAGTGGAAACTGTTGATAGAACTGGAACTTTCTTGGGATCTCTATGGGAGGCAAAAACCAACATGGCAGTGACACTTCTTGAGGCTGGACTAGCAA
| | | || | |||| || | ||| || ||| ||| ||| ||||| | || | | || ||||||| || || ||||| |||||| |||||||||| ||||||||||| |||||||| | | |||||| ||||| | ||||| || || ||||| || ||||
gtaaatcaattcctttctgaactt-tagattcctgtatgcccgcttat--tttattgttaaatattttttattttttgcagATAGAGGTTGAAACCGTTGATCGAACTGGAACATTCTTGGGATCCTTATGGGAGTCGAGGACCAACGTGGCAATTACACTGCTCGAAGCTGGTCTGGCAA
upper sequence: Vv00s0283g00020.t01 (Vitis vinifera), 3'ss of exon 12
lower sequence: AT5G07350.1 (Arabidopsis thaliana), 3'ss of exon 12
--gtactgt-tcctcttttaaactggtaacctgctggctggtttctttccctttgttgctaaatctattctttc-ttatgcagATTGAAGTGGAAACTGTTGATAGAACTGGAACTTTCTTGGGATCTCTATGGGAGGCAAAAACCAACATGGCAGTGACACTTCTTGAGGCTGGACTAGCAA
|| | | | | | ||| | | | | || ||| | ||| || | || | | | | | ||||||||||| ||||| || |||||||| || |||||||||||||| | ||||| | | || ||| |||| || ||||| ||||| ||||||
gtaaaccgaatgcacatctaagaattaatctcagtttcctattcttttaaatgggtttctcatactctattataatcacacagATTGAAGTTGAAACCGTGGATAGAACCGGTACTTTCTTGGGATCCATGTGGGAATCGAGGACAAACGTGGCTACAGTTCTGCTTGAAGCTGGCTTAGCAA atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.aacctgctggctggtttctttccctttgttgctaaatctattctttcttatgcagATTGAAGTGGAAACTGTTGATAGAACTGGAACTTTCTTGGGATCTCTATGGGAGGCAAAAACCAACATGGCAGTGACACTTCTTGAGGCTGGACTAGCAA
tgctaaa putative branch site (score: 2)
tctattctttcttat CT-rich tract
taaatctattcttt 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gtactgttcctcttttaaactggtaacctgctggctggtttctttccctttgttgctaaatctattctttcttatgcagATTGAAGTGGAAACTGTTGATAGAACTGGAACTTTCTTGGGATCTCTATGGGAGGCAAAAACCAACATGGCAGTGACACTTCTTGAGGCTGGACTAGCAA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GCTGGA