Sequence
atgc intronic sequence ATGC exonic sequence...tattttatgttccaactattttttattatatggtattgcttcaactatgttttcataatgagtaggtataacattgttaagagcattatattacttgcagGTTCTTGAAAGCAAGGAAGTTTGATATTGAGAAAGCAAAGCACATGTGGACTGATATGATTCAGTGGAGGAAGGATTTTGGTGCTGACACAATTTTGGAG
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: Vv03s0038g04470.t01 (Vitis vinifera), 3'ss of exon 3
lower sequence: LOC_Os02g04020.1 (Oryza sativa), 3'ss of exon 3
tattttatgttccaactattttttattatatggtattgctt-caactatgttttcataatga--gtaggtataacattgttaagagcattatattacttgcagGTTCTTGAAAGCAAGGAAGTTTGATATTGAGAAAGCAAAGCACATGTGGACTGATATGATTCAGTGGAGGAAGGATTTTGGTGCTGACACAATTTTGGAG
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--------------------gtatat-ataccctattacttaccatcatttttttaacccaactgcaaacatgctgatgacttgactaattgatt-tgtgtagATTTCTAAAAGCAAGGAGATTTGACATTGAGAAAGCAAAGCAAATGTGGACTGACATGCTTAAATGGAGGAAGGAGTACGGTACAGATACAATTGTTGAG
upper sequence: Vv03s0038g04470.t01 (Vitis vinifera), 3'ss of exon 3
lower sequence: LOC_Os05g46720.2 (Oryza sativa), 3'ss of exon 2
-------tattttatgttccaactattttttattatatggtattgcttcaactatgttttcataatgagtaggtataacattgttaagagcattatattacttgcagGTTCTTGAAAGCAAGGAAGTTTGATATTGAGAAAGCAAAGCACATGTGGACTGATATGATTCAGTGGAGGAAGGATTTTGGTGCTGACACAATTTTGGAG
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agagtggcaatctttggagcagcaaatcatta--agaggctaccctgaagaaaatgattggctggtc-----gtgtgaaattttcattttatctccttcacatatagGTTCCTCAAAGCACGGAAATTTGATGTTGAGAAAGCAAAGAGTATGTGGTCAGATATGCTTAAATGGAGAAAGGAATTTGGGGCTGACAATATAGAG---
upper sequence: Vv03s0038g04470.t01 (Vitis vinifera), 3'ss of exon 3
lower sequence: GRMZM2G157043_T01 (Zea mays), 3'ss of exon 2
--------------------------------------------------------tattttatgttccaactattttttattatatggtattgcttca--actatgttttcataa--tgagtaggtataacattgttaagagcattatattacttgcagGTTCTTGAAAGCAAGGAAGTTTGATATTGAGAAAGCAAAGCACATGTGGACTGATATGATTCAGTGGAGGAAGGATTTTGGTGCTGACACAATTTTGGAG
|||||| | | | | ||| ||| |||| | ||| | || |||| | | | ||| |||| || | | |||| || |||||| |||||||||| || ||| ||||||| |||||||| || |||||| | || ||| || ||||||||||| ||||||||||||| || |
gtattgctgcatctgatttgctcatcttaagtttcttggttcttctcttctgtcaagtttttatttcctgcacaatattt-ttacatggaaaaaactcatgaatagaatttcgcccccttatttggtttaacttttctttctatgcctt-ttacatgtagGTTCCTGAAAGCAAGAAAATTTAATATTGACAAAGCAAAACATATGTGGTCAGAGATGCTTAGATGGAGGAAGGAATTTGGTGCTGACAATATAGAG---
upper sequence: Vv03s0038g04470.t01 (Vitis vinifera), 3'ss of exon 3
lower sequence: GRMZM2G171354_T03 (Zea mays), 3'ss of exon 3
--------------tattttatgttccaactattttttattatatggtattgcttcaactatgttttcataatgagtaggtataacattgttaagagcattatattacttgcagGTTCTTGAAAGCAAGGAAGTTTGATATTGAGAAAGCAAAGCACATGTGGACTGATATGATTCAGTGGAGGAAGGATTTTGGTGCTGACACAATTTTGGAG
|| ||||| | || || || |||| | || || || | | | || | ||| | || ||| || | | || || | ||||||||||| |||||||| || ||||||||||| ||||||| |||||| |||| ||| ||| ||| | ||| |||| || |||||||||
gtatatgtatccagtaaattatgatgcaccttttgtttagcttgatgtgttagttttcatttttccaaatcacaagtgcacagctcaagcctaactaaatc---tggtctttagATTTCTAAAAGCAAGGAAATTTGATATCGACAAAGCAAAGCAAATGTGGATGGATATGCTTCATTGGCGGAGGGAGTATGGCACTGATACGATTTTGGAG
upper sequence: Vv03s0038g04470.t01 (Vitis vinifera), 3'ss of exon 3
lower sequence: GLYMA12G04460.1 (Glycine max), 3'ss of exon 2
-tattttatgttccaactattttttattatatggtattgcttcaactatgttttcataatgagtaggtataacattgttaagagcattatattacttgcagGTTCTTGAAAGCAAGGAAGTTTGATATTGAGAAAGCAAAGCACATGTGGACTGATATGATTCAGTGGAGGAAGGATTTTGGTGCTGACACAATTTTGGAG
| | || | || || |||| | || || | || | || || || | | || ||| ||| || | ||||||| ||||||||||||||||||||||||| | ||||||||| |||||| |||||||| | || ||||||||||| |||||| ||||||| ||| |||||
gtgtgccttgcccaaagtaattttcttcat------ttcccgaaatggaatgttt----tgcttaattttcttcttcttattttttttacttt---tacagGTTCCTGAAAGCAAGGAAGTTTGATATTGAAAGAGCAAAGCATATGTGGGCTGATATGCTACAATGGAGGAAGGAGTTTGGTACTGACACTATTATGGAG
upper sequence: Vv03s0038g04470.t01 (Vitis vinifera), 3'ss of exon 3
lower sequence: GLYMA11G12260.1 (Glycine max), 3'ss of exon 2
tattttatgttccaactattttttattatatggtattgcttcaactatgttttcataatgagtaggtataacattgttaagagcattatattacttgcagGTTCTTGAAAGCAAGGAAGTTTGATATTGAGAAAGCAAAGCACATGTGGACTGATATGATTCAGTGGAGGAAGGATTTTGGTGCTGACACAATTTTGGAG
||| || ||| || | | |||| | | || | ||| || | | | ||| || | ||| ||| || |||||| ||||||| ||||||||||||||||| | ||||||||| |||||| |||||||| | || ||||||||||| |||||| ||||||| ||| |||||
------gtgtgccttgcctttgataattttctttatttcctgaaatggaatttt----tgcttctcttttttattttttat--ttttacatt--ttatagGTTCCTGAAAGCGAGGAAGTTTGATATTGAAAGAGCAAAGCATATGTGGGCTGATATGCTACAATGGAGGAAGGAGTTTGGTACTGACACTATTATGGAG
upper sequence: Vv03s0038g04470.t01 (Vitis vinifera), 3'ss of exon 3
lower sequence: GLYMA04G01220.1 (Glycine max), 3'ss of exon 2
tattttatgttccaactattttttattatatggtattgcttcaactatgttttcataatgagtagg--tataacattgttaagagcattatattacttgcagGTTCTTGAAAGCAAGGAAGTTTGATATTGAGAAAGCAAAGCACATGTGGACTGATATGATTCAGTGGAGGAAGGATTTTGGTGCTGACACAATTTTGGAG
| | || | | | | |||| || | | |||| ||| | || | |||| | | ||||| || || || |||||||| ||||||||||||||||| || |||||||| ||||||||||| ||| | || ||||||||||| ||||||||||| || ||| || ||
tgaaaaaaattaagaatggaaccctattt-tggtgttatattacttatgattttg-gacgaatgaacttatacctggaatttcttaattattgattttaaagATTTTTGAAAGCGAGGAAGTTTGATATTGAAAAGGCAAAGCATATGTGGACTGACATGCTACAATGGAGGAAGGAGTTTGGTGCTGATACTATTGTGCAG
upper sequence: Vv03s0038g04470.t01 (Vitis vinifera), 3'ss of exon 3
lower sequence: GLYMA06G01260.1 (Glycine max), 3'ss of exon 2
--tattttatgttccaactattttttattatatggtattgcttcaactatgttttcat-aatgag--taggtataacattgttaagagcattatattacttgcagG-TTCTTGAAAGCAAGGAAGTTTGATATTGAGAAAGCAAAGCACATGTGGACTGATATGATTCAGTGGAGGAAGGATTTTGGTGCTGACACAATTTTGGAG
| | | | ||| | || | | | ||| ||| | || ||| | |||||| || | | ||| | | ||||| | | || | | || |||||||| |||||||| |||||||| || ||||| || ||||||||||| ||| | || ||||||||||| ||||||||||| || ||| || ||
aagaaataagaatggaaccccctattttcgtgttaaattactt--atgatttttggacgaatgagcttatacctgaaatttctta----attatgtgatttttaagATTTTTGAAAGCGAGGAAGTTCGATATTGAAAAGGCAAAACATATGTGGACTGACATGCTACAATGGAGGAAGGAGTTTGGTGCTGATACTATTATGCAG atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.tatgttttcataatgagtaggtataacattgttaagagcattatattacttgcagGTTCTTGAAAGCAAGGAAGTTTGATATTGAGAAAGCAAAGCACATGTGGACTGATATGATTCAGTGGAGGAAGGATTTTGGTGCTGACACAATTTTGGAG
gtataac putative branch site (score: 3)
tataacattgttaa 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
tattttatgttccaactattttttattatatggtattgcttcaactatgttttcataatgagtaggtataacattgttaagagcattatattacttgcagGTTCTTGAAAGCAAGGAAGTTTGATATTGAGAAAGCAAAGCACATGTGGACTGATATGATTCAGTGGAGGAAGGATTTTGGTGCTGACACAATTTTGGAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGTGGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GTGGAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TGGAGG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GGAGGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TTGGAG
- - - - - -ccaacta
- - - - - - - - - - - - - - - - - - tgcttca