Sequence
atgc intronic sequence ATGC exonic sequence...gcatgtgaaagtgaaattttttagtcttagcatgtttacctcgtattcattggtattggtttaactgaagattactaatgggaataaatatcatttctagACTCCTGAAGAAATAAAAGAGTACAGGGAAAAGAAGATGAACAGTCCTTGGAGGGATAGACCAATTGCAGAATCGTTGGAACTTTTTGATCAAATGAGAC
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: Vv01s0011g03740.t01 (Vitis vinifera), 3'ss of exon 12
lower sequence: LOC_Os01g09000.1 (Oryza sativa), 3'ss of exon 11
----------------gcatgtgaaagtgaaattttttagtcttagca----tgtttacctcgtattcattggtattggtttaactgaagattactaatgggaat--aaatatcatttctagACTCCTGAAGAAATAAAAGAGTACAGGGAAAAGAAGATGAACAGTCCTTGGAGGGATAGACCAATTGCAGAATCGTTGGAACTTTTTGATCAAATGAGAC
| | | | || ||| | | | ||| | || || || ||| || | || | | ||| | |||| || | |||| | |||||||| || || |||||||||||||| ||||| ||||| |||||||||||||| |||| |||||| || |||| ||||| | |||||||
gtttcctccagctctcttttttattatttcgatccaacagtaattgaagttgtgtggagctgttacatcatgcccttgag--aaataaaatgtgcacatgctgactggtatatgcttgccagACCGCAGAAGAAATCAAGGAATACAGGGAAAAGAAAATGAATAGTCCATGGAGGGATAGACCCATTGAAGAATCACTGAAACTATTTGAAGACATGAGAC
upper sequence: Vv01s0011g03740.t01 (Vitis vinifera), 3'ss of exon 12
lower sequence: GRMZM2G048012_T01 (Zea mays), 3'ss of exon 10
-----------------------------------------------gcatgtgaaagtgaaattttttagtct--tagcatgtttacctcgtattcattggtattggtttaactgaagattactaatgggaataaatatcatttctagACTCCTGAAGAAATAAAAGAGTACAGGGAAAAGAAGATGAACAGTCCTTGGAGGGATAGACCAATTGCAGAATCGTTGGAACTTTTTGATCAAATGAGAC
| | | || ||| || || || || | | | | | | | | | ||| || | | || || ||| || | ||||| | |||||||| || ||||||||||||||||||||||| ||||| ||||||||||| ||||||| ||| || ||| | | ||||| | ||||| |
gtacatttcacctcacattttcattatttgctctagtagtgattgaagtgcgccgatctgctgcaccataggaaagaagaatattgactttgagtccttgagaaataaaatgcctgcagtgca-tgctgactgtatataat-ttaccagACTGCAGAAGAAATTAAGGAGTACAGGGAAAAGAAGATGAATAGTCCATGGAGGGATAGGCCAATTGAAGAGTCATTGAATTTATTTGAAGACATGAGGC
upper sequence: Vv01s0011g03740.t01 (Vitis vinifera), 3'ss of exon 12
lower sequence: GRMZM2G032049_T01 (Zea mays), 3'ss of exon 11
--------------------------------gcatgtgaaagtgaaattttttagtct-tagcatgtttacctcgtattcattggtattggttt------aactgaagattactaatg--ggaataaatatcattt-ctagACTCCTGAAGAAATAAAAGAGTACAGGGAAAAGAAGATGAACAGTCCTTGGAGGGATAGACCAATTGCAGAATCGTTGGAACTTTTTGATCAAATGAGAC
|| | |||| | ||| | |||| | |||| || | || | || | ||| | | |||| |||| | ||||| | |||||||| || || |||||||||||||||||| | ||||| ||||||| ||| ||||||| ||| || || || | ||||| | ||||| |
gtacatttcacctcacctgttcactatttgctccagtagtggttgaagtgcacagatctgtggcatcatgggaagaagaatattgacgctgagtccttgagaaataaaatgcatgcatgctgacttgtatataatttaccagACTGCAGAAGAAATCAAGGAATACAGGGAAAAGAAGATGGATAGTCCATGGAGGGGTAGGCCAATTGAAGAGTCTCTGAAATTATTTGAAGACATGAGGC
upper sequence: Vv01s0011g03740.t01 (Vitis vinifera), 3'ss of exon 12
lower sequence: GLYMA20G25120.2 (Glycine max), 3'ss of exon 12
gcatgtgaaagtgaaattttttagtcttagcatgtttacctcgtattc----attggtattggtttaactgaagattactaatgggaataaatatcatttctagACTCCTGAAGAAATAAAAGAGTACAGGGAAAAGAAGATGAACAGTCCTTGGAGGGATAGACCAATTGCAGAATCGTTGGAACTTTTTGATCAAATGAGAC
| ||| || | || | | | |||| || | | ||| ||||| ||| | || |||| || | | | || ||||| ||||| || ||||| ||||| ||||| ||||| |||||||||||||||| || ||||||||| |||| || ||| |||| ||||| | |||| |
-aacgtggaat---gacttatggaggatgaggtaattacatcatgctattgaatttgtattagttgcaacaaaaattaactatttataaatgatttggttgtagACACCTGATGAGATAAAGGAGTATAGGGAGAAGAAACTGAACAGTCCTTGGAGAGACAGACCAATTTCAGAGTCATTGAAACTCTTTGAGGATATGAAAA
upper sequence: Vv01s0011g03740.t01 (Vitis vinifera), 3'ss of exon 12
lower sequence: AT1G25350.2 (Arabidopsis thaliana), 3'ss of exon 12
----------------------------------------------gcatgtgaaagtgaaattttttagtcttagcatgtttacctcgtattcattggtattggttta-actgaagattactaatgggaataaatat-----catttctagACTCCTGAAGAAATAAAAGAGTACAGGGAAAAGAAGATGAACAGTCCTTGGAGGGATAGACCAATTGCAGAATCGTTGGAACTTTTTGATCAAATGAGAC
| | | | || ||| |||||| || ||| | || | | || | | ||| || ||| || ||| | | || || |||||| |||| || |||||||||||||| || ||||| |||||||| || |||||||| ||||| |||| |||||| | ||||||||||| |||||||||
gttgaatcaatttaaaatttctgacatatggattcctgttacttttaccaattata-tgtcattctttagttctaagctgtactgcaagtcagtctggaactttatccacactaaaacttatcctatcgagtaattgtttttacacttttagACTGCTGATGAGATAAAAGAGTACAGAGAGAAGAAAATGAACAGCCCCTGGAGGGACAGACCTATTGAAGAATCTCTAAAACTTTTTGATGAAATGAGAC atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.ttcattggtattggtttaactgaagattactaatgggaataaatatcatttctagACTCCTGAAGAAATAAAAGAGTACAGGGAAAAGAAGATGAACAGTCCTTGGAGGGATAGACCAATTGCAGAATCGTTGGAACTTTTTGATCAAATGAGAC
tactaat putative branch site (score: 1)
tcatttct putative PPT
aataaatatcatttct 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gcatgtgaaagtgaaattttttagtcttagcatgtttacctcgtattcattggtattggtttaactgaagattactaatgggaataaatatcatttctagACTCCTGAAGAAATAAAAGAGTACAGGGAAAAGAAGATGAACAGTCCTTGGAGGGATAGACCAATTGCAGAATCGTTGGAACTTTTTGATCAAATGAGAC
-catgtga
- - - - aagtgaaa
- - - - - - - - - - - - - - -gcatgtt
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - ggaataa