Sequence
atgc intronic sequence ATGC exonic sequence...atttttatttgacatatagttgaaggtcttattttgggggtaaatagacaatcatactgtttctttttcctctttttgtaaaccttaacactattctcagACGAACAAGGATATAACTGCTCAAATTATATCTGCTAGTATTGCTGGTGATATGGTTCTTGCAGCGGCCTATTCCCATGAACTGCCTCACTATGGGCTTG
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: Vv00s0174g00190.t01 (Vitis vinifera), 3'ss of exon 4
lower sequence: LOC_Os01g67134.1 (Oryza sativa), 3'ss of exon 3
-----atttttatttgacatatagttgaaggtcttattttgggggtaaat--agacaatcatactgt---ttctttttcctctttttgtaaaccttaacactattctcagACGAACAAGGATATAACTGCTCAAATTATATCTGCTAGTATTGCTGGTGATATGGTTCTTGCAGCGGCCTATTCCCATGAACTGCCTCACTATGGGCTTG
||||| || ||| | | | | ||| |||||| | || ||||| | || || | || | |||| |||||| | || | |||| ||||| ||||| || ||||||||| | | ||||| |||||||||||||| || | || || ||||| |||||||| ||||||| |||||| ||||
gtatcctttttgttctttgtatcatgatatttatgcatttcctcgtaaattctggttattatactatatatttgttattatcatactgtatgccttaatagtacatt-agACAAACAAAGATATCACAGCTCAAATTGTCTATGCTACCATTGCTGGTGATATCGTGATGGCTGCTGCCTACTCCCATGAGCTGCCTCGCTATGGTCTTG
upper sequence: Vv00s0174g00190.t01 (Vitis vinifera), 3'ss of exon 4
lower sequence: GRMZM2G163081_T04 (Zea mays), 3'ss of exon 3
atttttatttgacatatagttgaaggtcttattttgggggtaaatagacaatcatactgtttctttttcctctttttgtaaaccttaac--actattctcagACGAACAAGGATATAACTGCTCAAATTATATCTGCTAGTATTGCTGGTGATATGGTTCTTGCAGCGGCCTATTCCCATGAACTGCCTCACTATGGGCTTG
| | ||||| || |||| ||| ||| || | | | || | | ||||| |||||| |||||| |||| |||||||| || ||||| ||||| |||||||||||||| || ||||||||||||||||| | ||||| || ||||| |||| | ||||| ||||
-gtatcctttgat---tatttgaccatctggtttctacc-tattgctatggtactttgagctccagaagcatatattgtatctcttaactagatattcttagACCAACAAGGACATCACTGCCCAAATCATATCTGCTAGTATAGCGGGTGATATGGTTCTTGCTTCTGCCTACTCGCATGAGTTGCCACGATATGGTCTTG
upper sequence: Vv00s0174g00190.t01 (Vitis vinifera), 3'ss of exon 4
lower sequence: GRMZM5G815894_T03 (Zea mays), 3'ss of exon 3
------------------att-tttatttgacatatagttgaaggtcttattttgggggtaaatagacaatcatactgtttctttttcctctttttgtaaaccttaac--actattctcagACGAACAAGGATATAACTGCTCAAATTATATCTGCTAGTATTGCTGGTGATATGGTTCTTGCAGCGGCCTATTCCCATGAACTGCCTCACTATGGGCTTG
|| ||| ||| | | || || | ||| | || | | | | | | | | | | ||||| |||||| | || |||| |||||||| || || || ||||| || ||||||||||| || ||||||||||||||||| | || || || ||||| |||| | ||||| ||||
gtatcctttgattccttcatcatttgttttctttgttctttaatcatctggtttctgcttattactatggtacttgagctccagtggcataatattgtacctcttaactagacctccttagACCAACAAGGACATCACAGCACAAATCATCTCTGCTAGTATAGCAGGTGATATGGTTCTTGCTTCTGCTTACTCGCATGAGTTGCCACGATATGGTCTTG
upper sequence: Vv00s0174g00190.t01 (Vitis vinifera), 3'ss of exon 4
lower sequence: GLYMA07G06580.1 (Glycine max), 3'ss of exon 3
------atttttatttgacatatagttgaaggtcttattttgggggtaaatagacaatcatactgtttctttttcctctttttgtaaaccttaacactattctcagACGAACAAGGATATAACTGCTCAAATTATATCTGCTAGTATTGCTGGTGATATGGTTCTTGCAGCGGCCTATTCCCATGAACTGCCTCACTATGGGCTTG
|| ||| ||| || | || | | || | ||| | || | || | | | | ||||||| | |||||||||| || || ||| |||||||| || ||| ||||| ||||||||||| |||||||| ||||| |||||||| || || ||| | ||||| ||||| || ||||| ||||
tacttaatatttgtttattattttatttatgcctttggtatgg---catatgaatgattaaa---tatgcttttcctgtgagtgtaaaccttgacctatttactagAGCAACAAGGACATTGTTGCACAAATAATATCTGCTAGCATTGCTGGCGATATTGTTCTTGCTGCAGCATATGCACATGAGCTGCCACAATATGGTCTTG
upper sequence: Vv00s0174g00190.t01 (Vitis vinifera), 3'ss of exon 4
lower sequence: GLYMA16G03170.1 (Glycine max), 3'ss of exon 3
atttttatttgacatatag-ttgaaggtcttattttgggggtaaatagacaatcatactgtttctttttcctctttttgtaaaccttaacactattctcagACGAACAAGGATATAACTGCTCAAATTATATCTGCTAGTATTGCTGGTGATATGGTTCTTGCAGCGGCCTATTCCCATGAACTGCCTCACTATGGGCTTG
||| | | || | | | | | | | ||| | | || | || | ||| ||||| || | |||||||||| || || | ||| ||||| || || ||| ||||| ||||||||||| |||||||| ||||| |||||||| || || ||| | ||||| ||||| | ||||| ||||
-tttatttatggcttgaggatagcacatgaacgattgaagttgtttatctggtgatgttttttgttttttctgtgggtgtaaaccttgacctggtttttagAGCAACAAAGACATTGTTGCACAAATAATATCTGCTAGCATTGCTGGCGATATTGTTCTTGCTGCAGCATATGCACATGAGCTGCCACGATATGGTCTTG
upper sequence: Vv00s0174g00190.t01 (Vitis vinifera), 3'ss of exon 4
lower sequence: GLYMA07G06590.1 (Glycine max), 3'ss of exon 3
------atttttatttgacatatagttgaaggtcttattttgggggtaaatagacaatcatactgtttctttttcctctttttgtaaaccttaacactattctcagACGAACAAGGATATAACTGCTCAAATTATATCTGCTAGTATTGCTGGTGATATGGTTCTTGCAGCGGCCTATTCCCATGAACTGCCTCACTATGGGCTTG
|| ||| ||| || | || | | || | ||| | || | || | | | | ||||||| | |||||||||| || || ||| |||||||| || ||| ||||| ||||||||||| |||||||| ||||| |||||||| || || ||| | ||||| ||||| | ||||| ||||
tacttaatatttgtttattattttatttatgcctttggtatgg---catatgaatgattaaa---tatgcttttcctgtgagtgtaaaccttgacctatttactagAGCAACAAGGACATTGTTGCACAAATAATATCTGCTAGCATTGCTGGCGATATTGTTCTTGCTGCAGCATATGCACATGAGCTGCCACGATATGGTCTTG atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.agacaatcatactgtttctttttcctctttttgtaaaccttaacactattctcagACGAACAAGGATATAACTGCTCAAATTATATCTGCTAGTATTGCTGGTGATATGGTTCTTGCAGCGGCCTATTCCCATGAACTGCCTCACTATGGGCTTG
aaccttaac putative branch site
ctattctc putative PPT
tttttgtaaa 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
atttttatttgacatatagttgaaggtcttattttgggggtaaatagacaatcatactgtttctttttcctctttttgtaaaccttaacactattctcagACGAACAAGGATATAACTGCTCAAATTATATCTGCTAGTATTGCTGGTGATATGGTTCTTGCAGCGGCCTATTCCCATGAACTGCCTCACTATGGGCTTG
- - - - - - - - - - - - - - - - -ttggggg
- - - - - - - - - - - - - - - - - - - - -aaataga
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - ccttaac
