Sequence
atgc intronic sequence ATGC exonic sequence...atattttgcataaaggtccatcctaattttcgctgtccttcttcacaaaagttccaaaccttatgactgaactttgacagtttttcctttgcaaccttagGAAGAAGCAAGAGCAGTTGGTCAGCTCCGCAACCATAGATTGGCAAATTTGCTTGGTTGTTGTTGTGAGGATAATGAAAGGTTGCTGGTGGCGGAATATA
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: Vv15s0046g02900.t01 (Vitis vinifera), 3'ss of exon 3
lower sequence: GRMZM2G382104_T02 (Zea mays), 3'ss of exon 3
atattttgcataaaggtccatcctaattttcgctgtccttcttcacaaaagttccaaaccttatgactgaactttgacagtttttcctt--------tgcaacct-tagGAAGAAGCAAGAGCAGTTGGTCAGCTCCGCAACCATAGATTGGCAAATTTGCTTGGTTGTTGTTGTGAGGATAATGAAAGGTTGCTGGTGGCGGAATATA
|||||| | || || ||| | | || |||| ||| | | ||| ||| | | | | || | || | ||||||||||| ||| ||||||| | |||||| | | | || ||||||||||||||||||||||| ||||| | |||| || ||||| || || ||||| |
------tgcataggattgaatttta-tttgctttacccacaagtgcaaattttctaggac--atggtcaaacactcaaaatgaccttttgtgaaatacgtaatttgtagGAAGAAGCTAGATCAGTTGGCCTGCTCCGAAGCAAAAGGTTGGCAAATTTGCTTGGTTGTTGCTGTGAAGGCGATGAGAGATTGCTTGTTGCAGAATACA
upper sequence: Vv15s0046g02900.t01 (Vitis vinifera), 3'ss of exon 3
lower sequence: GRMZM2G055561_T01 (Zea mays), 3'ss of exon 4
-atattttgcataaa-ggtccatcctaattttcgctgtccttcttcacaaaagttccaaaccttatgactgaactttgacagtttttcctttgcaacctt--agGAAGAAGCAAGAGCAGTTGGTCAGCTCCGCAACCATAGATTGGCAAATTTGCTTGGTTGTTGTTGTGAGGATAATGAAAGGTTGCTGGTGGCGGAATATA
| ||||| || | | | | |||| | || |||| ||| || | ||| ||| | || | | ||||| | | |||||||||| ||| ||||||| | |||||| | | | || ||||||||||||||||| ||||| || || | | ||||||||||||| || || ||||| |
tcttttttgtgtatatgattggattttatttgcttgccccgaaagtgcaaattttctaagac--atggtcaaacaat--caatctggccttttgatttgtgcagGAAGAAGCTAGATCAGTTGGCCTGCTCCGAAGCAAAAGGTTGGCAAATTTGCTTGGCTGTTGCTGCGAAGGTGATGAAAGGTTGCTTGTTGCAGAATACA
upper sequence: Vv15s0046g02900.t01 (Vitis vinifera), 3'ss of exon 3
lower sequence: GLYMA07G07850.2 (Glycine max), 3'ss of exon 3
atattttgca--taaaggtccatcctaattttcgctgtccttcttcacaaaagttccaaaccttatgactgaactttgacagtttttcctttgcaaccttagGAAGAAGCAAGAGCAGTTGGTCAGCTCCGCAACCATAGATTGGCAAATTTGCTTGGTTGTTGTTGTGAGGATAATGAAAGGTTGCTGGTGGCGGAATATA
| | || | ||| ||| | || |||| | | ||| | | | | | | ||| ||| | || ||| |||| ||||||||| ||||||||||||| || ||||| || ||||||||||||||||||||||| ||||| | | || |||||||| ||||| |||||||
tttctgtgaagctaatggtgtgcattgggttgtgctgatacaccttctgccttttcttttcactttcaattattcaaaacaatttctttctt--aactgcagGAGGAAGCAAGATCAGTTGGTCAGCTTCGTAACCAAAGGTTGGCAAATTTGCTTGGTTGTTGCTGTGAAGGAGAGGAGAGGTTGCTTGTGGCAGAATATA
upper sequence: Vv15s0046g02900.t01 (Vitis vinifera), 3'ss of exon 3
lower sequence: GLYMA03G01300.2 (Glycine max), 3'ss of exon 3
atattttgcataaaggtccatcctaattttcgctgtccttc--ttcacaaaagttccaaaccttatgactgaactttgacagtttttcctttgcaaccttagGAAGAAGCAAGAGCAGTTGGTCAGCTCCGCAACCATAGATTGGCAAATTTGCTTGGTTGTTGTTGTGAGGATAATGAAAGGTTGCTGGTGGCGGAATATA
| | || ||| ||| || || ||||| || | | || ||| | | | | | | | | ||||| || ||| |||| ||| ||||| ||||||||||||| || ||||| || ||||||||||||||||||||||| ||||| | | || |||||||| ||||| |||||||
ctgtgaagc-taatggtgtgcattagattgtgctgtgctacacctttcatcttttcttttcactttcaatta-ttcaaaagaattttctttcataactgcagGAGGAATCAAGATCAGTTGGTCAGCTTCGTAACCAAAGGTTGGCAAATTTGCTTGGTTGTTGCTGTGAAGGGGAGGAGAGGTTGCTTGTGGCAGAATATA atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.caaaagttccaaaccttatgactgaactttgacagtttttcctttgcaaccttagGAAGAAGCAAGAGCAGTTGGTCAGCTCCGCAACCATAGATTGGCAAATTTGCTTGGTTGTTGTTGTGAGGATAATGAAAGGTTGCTGGTGGCGGAATATA
ctttgac putative branch site (score: 4)
tttttcctttgc putative PPT
agttttt 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
atattttgcataaaggtccatcctaattttcgctgtccttcttcacaaaagttccaaaccttatgactgaactttgacagtttttcctttgcaaccttagGAAGAAGCAAGAGCAGTTGGTCAGCTCCGCAACCATAGATTGGCAAATTTGCTTGGTTGTTGTTGTGAGGATAATGAAAGGTTGCTGGTGGCGGAATATA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GAGGAT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TGGTGG
- - - - -ataaagg
- - - - - - - - -ccatcct
- - - - - - - - - - - - - - - -gctgtcc
- - - - - - - - - - - - - - - - - - - - - - acaaaag
- - - - - - - - - - - - - - - - - - - - - - - - - - -ccaaacc
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -tgactga