Sequence
atgc intronic sequence ATGC exonic sequence...atgtatctttgtgatatctggttaatctttctacttgatgccagtgtattcagaccagtaatccaggatgtgttaacctaaatatttatctgttatgtagAGGTGGTGGTGAATTGTCTACAAGGGACTTGCAAAAGATGGTTCAAGCTTTGCCACAATATAGTGAGCAAATTGAGAAGCTTTCCCTCCATGTTGAG
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: Vv13s0019g05000.t01 (Vitis vinifera), 3'ss of exon 12
lower sequence: LOC_Os02g25580.2 (Oryza sativa), 3'ss of exon 8
atgtatctttgtg---atatctggtta-atctttctactt-gatgccagtgtattcagaccagtaatccaggatgtgttaacctaaatatttatctgttatgtagAGGTGGTGGTGAATTGTCTACAAGGGACTTGCAAAAGATGGTTCAAGCTTTGCCACAATATAGTGAGCAAATTGAGAAGCTTTCCCTCCATGTTGAG
|| ||| | || | ||| || || | || | | | ||| | | || | | || || || |||| ||| ||| ||| || || | || | || || |||||||| |||||||||||| | ||||| || || || ||||||||||||||||| || |||||||||
atttatttggacatgtatgttgagttgcatgagtccattttgtttgtaatgttcttgacttattattttaatggtcattg--cttcatgtttaa--attac-cagAACTGGGGGAGAGATATCCAATAGAGATTTGCAAAAAATGGTTCAAGCTCTTCCACAGTACAGCGATCAAATTGAGAAGCTTTCTCTTCATGTTGAG
upper sequence: Vv13s0019g05000.t01 (Vitis vinifera), 3'ss of exon 12
lower sequence: LOC_Os04g18030.3 (Oryza sativa), 3'ss of exon 14
atgtatctttgtgatatctggttaatctttctacttgatgccagtgtattcagaccagta--atccaggatgtgt--taacctaaatatttatctgttatgt---agAGGTGGTGGTGAATTGTCTACAAGGGACTTGCAAAAGATGGTTCAAGCTTTGCCACAATATAGTGAGCAAATTGAGAAGCTTTCCCTCCATGTTGAG
|| || ||| | | || || | | | |||| || |||| | | ||| ||||| || | | ||| | ||| |||||| || || || || | || |||||||| |||||||||||| | || || || ||||| |||||||| |||||| | || |||||||||
------gttaatggtattcaaagatttgttttatgttgaattaat-tatttctgttgataggatccttttctttttgtaatgtaaatgcttgtgttatatttgtcagAAATGGTGGAGATTTATCAACCAAAGAGTTGCAAAAAATGGTTCAAGCTCTTCCGCAGTACAGTGATCAAATTGACAAGCTTGCGCTTCATGTTGAG
upper sequence: Vv13s0019g05000.t01 (Vitis vinifera), 3'ss of exon 12
lower sequence: GRMZM2G052880_T01 (Zea mays), 3'ss of exon 12
--atgtatctttgtgatatctggttaatctttctacttgatgccagtgt--attcagaccagtaatccaggatgtgttaacctaaatatttatctgttatgtagAGGTGGTGGTGAATTGTCTACAAGGGACTTGCAAAAGATGGTTCAAGCTTTGCCACAATATAGTGAGCAAATTGAGAAGCTTTCCCTCCATGTTGAG
|| || | |||| | | | | | || | || || ||||| ||||| || | | | ||| || ||| | ||| ||||| || ||||| || || ||||| |||||||| ||| | ||||| || ||||| |||||||| ||||||||||| |||||||||
actgacttccaaacacgattttgttagctatgttcttaacttcttgtttcaatgttgatttgtaatt-aggattgattgcatt---tccctttcttttcatcagAACCGATGGAGAATTATCGACAAGAGATTTACAAAAAATGGTTCAGGCTCTTCCACAGTACAGTGATCAAATTGATAAGCTTTCCCTGCATGTTGAG
upper sequence: Vv13s0019g05000.t01 (Vitis vinifera), 3'ss of exon 12
lower sequence: GRMZM2G012942_T01 (Zea mays), 3'ss of exon 12
atgtatctttgtgatatctggttaatctttctacttgatgccagtgtattcagaccagtaatccaggatgtgttaaccta-aatatttatctgttatgt-agAGGTGGTGGTGAATTGTCTACAAGGGACTTGCAAAAGATGGTTCAAGCTTTGCCACAATATAGTGAGCAAATTGAGAAGCTTTCCCTCCATGTTGAG
| | | || |||| || | | ||| | | | | | ||| | || | | | || ||| | ||| ||| |||||| || || ||||| | | | ||||| || |||||||||||| | |||||||| ||||| |||||||| ||||| |||| |||||||||
aaagggccaagcaatgct--gttagctaaagtattagctgcttgatagctgtgtcaatggatctggttaacatttattcataggatctattttgagtgtcagATCTGGTGGAGAGTTATCTACCAAGCAGTTGCAGAAAATGGTTCAAGCTCTTCCACAATACAGTGATCAAATTGACAAGCTCACCCTTCATGTTGAG
upper sequence: Vv13s0019g05000.t01 (Vitis vinifera), 3'ss of exon 12
lower sequence: GLYMA05G03970.1 (Glycine max), 3'ss of exon 13
--atgtatctttgtgatatctggttaatctttctacttgatgccagtgtattcagaccagtaatccaggatgtgttaacctaaatatttatctgttatgtagAGGTGGTGGTGAATTGTCTACAAGGGACTTGCAAAAGATGGTTCAAGCTTTGCCACAATATAGTGAGCAAATTGAGAAGCTTTCCCTCCATGTTGAG
| | || ||| || | | | || || | ||| || | | | |||| | || | | | | | | ||||||| |||||||| |||| ||||||||||| ||||||||||||||||| | |||||||| ||||| |||||||| ||||| ||||||||||| |||
ttgtaaaatttaatgaagcctagatctgtaatttatatgtttattcattatctag-ttactgtcatcataaactttaaac-aactttgcttttcatctatagAGGTAGTGGTGAAATGTCGACAAGGGACTTACAAAAGATGGTTCAAGCACTTCCACAATACAGTGAACAAATTGACAAGCTCTCCCTCCATGTAGAG
upper sequence: Vv13s0019g05000.t01 (Vitis vinifera), 3'ss of exon 12
lower sequence: GLYMA17G14450.1 (Glycine max), 3'ss of exon 12
-atgtatctttg--tgatatctggttaatctttctacttgatgccagtgtattcagaccagtaatc--caggatgtgttaacctaaatatttatctgttatgtagAGGTGGTGGTGAATTGTCTACAAGGGACTTGCAAAAGATGGTTCAAGCTTTGCCACAATATAGTGAGCAAATTGAGAAGCTTTCCCTCCATGTTGAG
| || || || | | | || | |||| | ||| | |||| | ||| | || || | | || ||| | | || ||||||| |||||||| |||| |||||||||||||| |||||||||||||| | |||||||| || || |||||||| ||||| ||||||||||| |||
ccttcattcatgaatggtttttcaaaaaccattcttat--atgtttatttatt--atctagttactgtcatcataaactttacacaac-tttgcatttcatttagAGGTAGTGGTGAAATGTCAACAAGGGACTTGCAGAAGATGGTTCAAGCACTTCCACAATACAGCGAACAAATTGACAAGCTCTCCCTCCATGTAGAG
upper sequence: Vv13s0019g05000.t01 (Vitis vinifera), 3'ss of exon 12
lower sequence: GLYMA11G03230.1 (Glycine max), 3'ss of exon 12
atgtatctttgtgatatctggttaatctttctacttgatgccagtgt--attcagaccagtaatccaggatgtgttaacct--aaatattta--tctgttatgt----agAGGTGGTGGTGAATTGTCTACAAGGGACTTGCAAAAGATGGTTCAAGCTTTGCCACAATATAGTGAGCAAATTGAGAAGCTTTCCCTCCATGTTGAG
|| | | || | | || | |||||| ||| | ||| | | || | | | | || || || |||| | | |||| | | ||| || | ||||| |||| ||||||||| | ||||||||||||||||| | ||||| || ||||| |||||||| ||||| ||||||||||| |||
------tttagctaagcctagat----ttattgtttgatggaagttttgatttattcatctagttctcgtcataacaaacttaaattattgaattttgttgtatttatagAAGTAGCAGTGAAATGTCAACAAGGGACATACAAAAGATGGTTCAAGCACTTCCACAGTACAGTGAACAAATTGACAAGCTCTCCCTCCATGTAGAG
upper sequence: Vv13s0019g05000.t01 (Vitis vinifera), 3'ss of exon 12
lower sequence: GLYMA01G42140.1 (Glycine max), 3'ss of exon 8
atgtatctttgtgatatctggttaatctttctacttgatgccagtgtattcagaccagt--aatccaggatgtgttaacct--aaatattta--tctgttatgt----agAGGTGGTGGTGAATTGTCTACAAGGGACTTGCAAAAGATGGTTCAAGCTTTGCCACAATATAGTGAGCAAATTGAGAAGCTTTCCCTCCATGTTGAG
|| | | || | | || | |||||| ||||| | | | | | | | | | || || || |||| | | |||| | | || || | ||||| |||||||||||||| | |||| || |||||||| | ||||| || ||||| |||||||| ||||| ||||||||||| |||
------tttagctaagcctagat----ttattgtttgatggaagtgtttctttattaatctagttctcgtcataacaaacttaaattattgaattttgttgtatttatagTAGTAGCAGTGAAATGTCTACAAGGGACATACAAACCATCGTTCAAGCACTTCCACAGTACAGTGAACAAATTGATAAGCTCTCCCTCCATGTAGAG
upper sequence: Vv13s0019g05000.t01 (Vitis vinifera), 3'ss of exon 12
lower sequence: AT1G12360.1 (Arabidopsis thaliana), 3'ss of exon 12
---atgtatctttgtgat-atctggttaatct-ttctacttgatgccagtgtattcagaccagtaatccaggatgtgttaacctaaatatttatctgttatgtagAGGTGGTGGTGAATTGTCTACAAGGGACTTGCAAAAGATGGTTCAAGCTTTGCCACAATATAGTGAGCAAATTGAGAAGCTTTCCCTCCATGTTGAG
| | || | | | |||| | | | | || ||| | || | | | | | | | | | || | | | || ||||| ||| | ||| | |||||||| || ||||| |||||||||||||| |||||||| || ||||| |||||||| ||||| || ||||| || |||
cttacattactctacgttgatctatgtggtatactttatttggt--tagagaagtaggtcttctctcctt---ttgatcaattttgtttgactcttttttcttagAGATGGAGCTGAGCTTTCTACAAGAGATTTGCAGAAGATGGTTCAAGCATTGCCACAGTACAGTGAACAAATTGACAAGCTCTCTCTCCACGTAGAG atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.gtattcagaccagtaatccaggatgtgttaacctaaatatttatctgttatgtagAGGTGGTGGTGAATTGTCTACAAGGGACTTGCAAAAGATGGTTCAAGCTTTGCCACAATATAGTGAGCAAATTGAGAAGCTTTCCCTCCATGTTGAG
tttatct CT-rich tract
taaatatttatctgtt 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
atgtatctttgtgatatctggttaatctttctacttgatgccagtgtattcagaccagtaatccaggatgtgttaacctaaatatttatctgttatgtagAGGTGGTGGTGAATTGTCTACAAGGGACTTGCAAAAGATGGTTCAAGCTTTGCCACAATATAGTGAGCAAATTGAGAAGCTTTCCCTCCATGTTGAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGAAGC
- - - - - - - - - - - - - - - - - - gatgcca
- - - - - - - - - - - - - - - - - - - - - - - - - cagacca
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -ggatgtg
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - aacctaa