Sequence
atgc intronic sequence ATGC exonic sequence...ggttgtagccacgctggacactataccttcatactttttgtcttgaagattacttcgttgctgactttgtctgattctatctgtcatcactgaccaacagGGCATAATGGTACCATAAATGGACAGGGCCAAACTTGGTGGAAGAAGTATCGCCAAAAGCTTCTCAACCACACTAGGGGTCCACTTGTTCAGATAATGTG
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: Vv11s0016g00720.t01 (Vitis vinifera), 3'ss of exon 2
lower sequence: GLYMA13G17170.1 (Glycine max), 3'ss of exon 2
ggttgtagccacgctggacactataccttcatactttttgtct-tgaagatta--cttcgttgctgactttgtctgattctatctgtcatcactgaccaacagGGCATAATGGTACCATAAATGGACAGGGCCAAACTTGGTGGAAGAAGTATCGCCAAAAGCTTCTCAACCACACTAGGGGTCCACTTGTTCAGATAATGTG
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--tctttttttttttttaaatctccccttcccccttgttctatgtgatgcttaagcttaatttacaaatttatctgatttcatctattgtca-taactgacagGGCATAACGGTACCATAAATGGACAGGGACAAACATGGTGGAAAAAATATCGCCAGAAGCGTCTCAACCACACTAGGGGGCCACTTGTTCAGATCATGTT
upper sequence: Vv11s0016g00720.t01 (Vitis vinifera), 3'ss of exon 2
lower sequence: GLYMA09G08270.1 (Glycine max), 3'ss of exon 2
------ggttgtagccacgctggacac-tataccttcatactttttgtcttgaagattacttcgttgctgactttgtctgattctatctgtcatcactgaccaacagGGCATAATGGTACCATAAATGGACAGGGCCAAACTTGGTGGAAGAAGTATCGCCAAAAGCTTCTCAACCACACTAGGGGTCCACTTGTTCAGATAATGTG
|| || | | | ||| || || |||| | |||| | || ||| || |||| | ||| | ||| || || ||||| |||||||||||||||||||||||||| ||||| ||||||| ||||||||||| |||||||| |||||||| ||||| ||||||||||||||| ||||
caagcagggtgaactaattaggaacagacatgccacagtactgatc-tcttttacttttctttgtgcaatactt------actctctatgttttctcttgttgacagGCCATAATGGTACCATAAATGGACAGGGACAAACATGGTGGACAAAGTATCGCCAGAAGCTTCTGAACCACACAAGGGGGCCACTTGTTCAGATATTGTG
upper sequence: Vv11s0016g00720.t01 (Vitis vinifera), 3'ss of exon 2
lower sequence: GLYMA15G19820.1 (Glycine max), 3'ss of exon 2
ggttgtagccacgctggacactataccttcatactttttgtcttgaagat--tacttcgttgctgactttgtctgattctatctgtca-----tcactgaccaacagGGCATAATGGTACCATAAATGGACAGGGCCAAACTTGGTGGAAGAAGTATCGCCAAAAGCTTCTCAACCACACTAGGGGTCCACTTGTTCAGATAATGTG
||| || | | | | | | | |||| || || | |||| | | |||||| | || || ||| || || || ||||| || ||||||||||||||||||||||| ||||| ||||||| ||||||||||| |||||||| |||||||| ||||| ||||||||||||||| ||||
-----tag--acattagtttaagtgtccgtttccgtgttgttttagagtccgtgcttcatacatttctttgtgttatactttctctctatgtttctcttgtttacagGCCACAATGGTACCATAAATGGACAGGGACAAACATGGTGGACAAAGTATCGCCAGAAGCTTCTGAACCACACAAGGGGGCCACTTGTTCAGATATTGTG
upper sequence: Vv11s0016g00720.t01 (Vitis vinifera), 3'ss of exon 2
lower sequence: GLYMA17G05550.1 (Glycine max), 3'ss of exon 2
--ggttgtagccacgctggacactataccttcatactttttgtcttgaagattacttcgttgctgactttgtctgattctatctgtcatcactgaccaacagGGCATAATGGTACCATAAATGGACAGGGCCAAACTTGGTGGAAGAAGTATCGCCAAAAGCTTCTCAACCACACTAGGGGTCCACTTGTTCAGATAATGTG
|| | || | | || ||| | | ||| || | ||| || ||||| ||||||| |||| | || || ||||||||||| |||||||||||||||||||| || | |||||||| || |||||||| |||| |||||||||||||||||| |||||||||||||| ||||
tttttttttttttttctatctccccttcccccatgttctatgtgatgcttaa-gcttaatttacaactttatctgatttcatctattgccaa-aactgacagGGCATAACGGTACCATAAATGGACAGGGACAGTCATGGTGGAAAAAATATCGCCAGAAGCGTCTCAACCACACTAGGGGGCCACTTGTTCAGATCATGTT
upper sequence: Vv11s0016g00720.t01 (Vitis vinifera), 3'ss of exon 2
lower sequence: AT3G42950.1 (Arabidopsis thaliana), 3'ss of exon 2
ggttgtagccacgctggacactataccttcatacttttt---gtcttgaagattacttcgttgctgactttgtctgattctatctgtcatcactgaccaacagGGCATAATGGTACCATAAATGGACAGGGCCAAACTTGGTGGAAGAAGTATCGCCAAAAGCTTCTCAACCACACTAGGGGTCCACTTGTTCAGATAATGTG
| | | | | | | || ||| | |||| || | || ||| | || | | ||| || || | || ||||||| ||||||||| ||| || || ||||| ||||| |||||||||||||||||||||||||| || |||||||| || || ||||| || |||||||||||
gactcaacttatgtggctaatagtattttctttctttgccaaacctgggagtttaatctgtcaactgtatgattgatggctaattg--atgatggaa-aacagGGAATAATGGTAGCATCAACGGGCAGGGACAAACGTGGTGGAAGAAGTATCGCCAAAAGCTGCTTAACCACACGAGAGGACCACTGGTGCAGATAATGTG atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.aagattacttcgttgctgactttgtctgattctatctgtcatcactgaccaacagGGCATAATGGTACCATAAATGGACAGGGCCAAACTTGGTGGAAGAAGTATCGCCAAAAGCTTCTCAACCACACTAGGGGTCCACTTGTTCAGATAATGTG
cactgac putative branch site (score: 2)
attctat 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
ggttgtagccacgctggacactataccttcatactttttgtcttgaagattacttcgttgctgactttgtctgattctatctgtcatcactgaccaacagGGCATAATGGTACCATAAATGGACAGGGCCAAACTTGGTGGAAGAAGTATCGCCAAAAGCTTCTCAACCACACTAGGGGTCCACTTGTTCAGATAATGTG
- - - -gccacgc
- - - - - - - - - - - - accttca
- - - - - - - - - - - - - - - - - - - tgtcttg
- - - - - - - - - - - - - - - - - - - - - - - - - - - - -ttgctga
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -tcatcac