Sequence
atgc intronic sequence ATGC exonic sequence...aagttatcactctaactaatcaatttttgaatctgatgctggatttgaattgtttgagatggctattttaccacatattgttttgcttttgtaaaactagGACATCCAAATGACCCTGCGGGATGAAATCAAAAGTGCATGTGAGTACCGTCCATTTGAGAAGTGCGATTACATTTCAAGAATATCTAATGAGATCTGTT
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: Vv17s0000g04620.t01 (Vitis vinifera), 3'ss of exon 2
lower sequence: GRMZM2G145996_T01 (Zea mays), 3'ss of exon 2
--aagttatcactctaactaatcaatttttgaatctgatgctggat---ttgaattgtttgagatggctattttaccacatattgttttgcttttgtaaaactagGACATCCAAATGACCCTGCGGGATGAAATCAAAAGTGCATGTGAGTACCGTCCATTTGAGAAGTGCGATTACATTTCAAGAATATCTAATGAGATCTGTT
|| ||| ||| | ||| ||||| || | | | | || | | | | ||| | || | || | || || || ||| | | ||||| || |||| ||| ||||| || |||||||||||||| || || |||||||||||||| ||||| ||||||| |||| || |||||||||| ||||
ataatgcatc-ttctcataaatttgttttt--atttaacacagaatacgtggcacagattgttcatggtaactcactgctta--attatgttttgattggagtagGAAATTCAAACGACACTGCGTGAGGAAATCAAAAGTGCTTGCGAATACCGTCCATTTGAAAAGTGTGATTACAGCGCAAGGATTGCTAATGAGATATGTT
upper sequence: Vv17s0000g04620.t01 (Vitis vinifera), 3'ss of exon 2
lower sequence: GRMZM2G071626_T01 (Zea mays), 3'ss of exon 2
---aagttatca-ctct-aactaatcaatttttgaatctg-atgctggatttgaattgtttgagatggctattttaccacatattgttttgcttttgtaaaactagGACATCCAAATGACCCTGCGGGATGAAATCAAAAGTGCATGTGAGTACCGTCCATTTGAGAAGTGCGATTACATTTCAAGAATATCTAATGAGATCTGTT
| |||| |||| || | | | | |||||| | | || | | ||| || ||| || || | || | || |||||| | ||||| || |||| ||| |||| || |||||||||||||| ||||| || ||||||||||| ||||| ||||||| | |||| || |||||||||| || |
atatatgcatcagctctcaattggttattatttgaagcagtatacatgccccaaatcattcatgataact----cactgctta--actatgtttttgttggagtagGAAATTCAAACGACGTTGCGTGAGGAAATCAAAAGTGCTTGTGAATATCGTCCATTTGAAAAGTGTGATTACAGTGCAAGGATTGCTAATGAGATATGCT
upper sequence: Vv17s0000g04620.t01 (Vitis vinifera), 3'ss of exon 2
lower sequence: GLYMA03G32550.1 (Glycine max), 3'ss of exon 3
aagttatcactctaa-ctaatcaatttttgaat-ctgatgctggatttgaattgtttgagatggctattttaccacatattgttttgcttttgtaaaact-agGACATCCAAATGACCCTGCGGGATGAAATCAAAAGTGCATGTGAGTACCGTCCATTTGAGAAGTGCGATTACATTTCAAGAATATCTAATGAGATCTGTT
| ||| ||| || | |||| | | ||| || | || | || | | || | || || ||| | ||| ||||||| ||| | | ||||||| || | | |||| ||||||||||||||||| ||||| || |||||||||||||| || ||||| |||||||||| | |||||||| |||
agcctattacttaaagttcatcatcatgttaatgctcaaacttgtgctgtagttttgtaaat--ctctttaatttcat-ttgttttcttttcaaatctttcagGACATTCAGGTTGCATTGCGTGATGAAATCAAAAGTGCTTGTGAATATCGTCCATTTGAGAAATGTGATTATGGTTCAAGAATAGCCAATGAGATTTGTC
upper sequence: Vv17s0000g04620.t01 (Vitis vinifera), 3'ss of exon 2
lower sequence: GLYMA19G35290.3 (Glycine max), 3'ss of exon 4
aagttatcactctaactaatcaatttttgaatctgatgctggatttgaattgtttgagatggctattttaccacata--ttgttttgcttttgtaaaact---agGACATCCAAATGACCCTGCGGGATGAAATCAAAAGTGCATGTGAGTACCGTCCATTTGAGAAGTGCGATTACATTTCAAGAATATCTAATGAGATCTGTT
| ||| | | | | || | | ||| | | || | || | | | | || || || ||| |||| ||| || ||||||| || | | |||||||||||||||||||||| ||||| || |||||||||||||| || || || ||||||||| | |||||||| |||
-----agtacttacagttacttaaagttcatcatcatgttaatgctcaaacttgtgctgtaattttgtaactctttaatttcattttttttttcaaatctttcagGACATTCAGGTTGCATTGCGGGATGAAATCAAAAGTGCTTGTGAATATCGTCCATTTGAGAAATGTGACTATGGTTCAAGAATCGCCAATGAGATTTGTC
upper sequence: Vv17s0000g04620.t01 (Vitis vinifera), 3'ss of exon 2
lower sequence: GLYMA19G35290.4 (Glycine max), 3'ss of exon 4
aagttatcactctaactaatcaatttttgaat-ctgatgctggatttgaattgtttgagatggctattttaccacatattgttttgcttttgtaaaactagGACATCCAAATGACCCTGCGGGATGAAATCAAAAGTGCATGTGAGTACCGTCCATTTGAGAAGTGCGATTACATTTCAAGAATATCTAATGAGATCTGTT---------
||||| | | | |||| | | ||| || | || | || | | || | || ||| | ||| || |||| | | | ||||||| || | | |||||||||||||||||||||| ||||| || |||||||||||||| || || || ||||||||| | |||||||| |||
-agttact--taaagttcatcatcatgttaatgctcaaacttgtgctgtaatttt----gtaactctttaatttcattttttttttcaaatctt---tcaggacattcagGTTGCATTGCGGGATGAAATCAAAAGTGCTTGTGAATATCGTCCATTTGAGAAATGTGACTATGGTTCAAGAATCGCCAATGAGATTTGTCACAAGAAAG
upper sequence: Vv17s0000g04620.t01 (Vitis vinifera), 3'ss of exon 2
lower sequence: AT3G01435.1 (Arabidopsis thaliana), 3'ss of exon 3
aagttatcactctaactaatcaatttttgaatctgatgctggatttgaattgtttgagatggctattttaccacatattgtttt---gcttttgtaaaact---agGACATCCAAATGACCCTGCGGGATGAAATCAAAAGTGCATGTGAGTACCGTCCATTTGAGAAGTGCGATTACATTTCAAGAATATCTAATGAGATCTGTT
|| ||| | || || || | |||| ||| | | ||| | ||| | |||| | | | | |||| ||||| |||| || ||| |||| || |||| || |||||||| || || ||||||||||| |||||||| |||||||||| | |||||| | ||||||||||| |
-----attg-tctggttcatgaacttgttgatctttgactgtacataaatgtgctataatgttatcgccaatccataataagatgaagttcttgtgaaacttgcagGATATACAAGTGACACTAAGGGAAGAGATCAAAAGCGCTTGCGAGTACCGTCCCTTTGAGAAATGCGATTACAACGCGAGAATAGCCAATGAGATCTGCTMapped EST sequences
Showing partial alignments of ESTs and genomic sequences. See full alignments
ATGC EST sequence
ATGC genomic sequence (exon)
ATGC genomic sequence (truncated intron)
EST:
gi|351030430|gb|FQ432368.1|FQ432368EST: GGAAGGAATTGCTCAGTATCCACTGTGGCGAGTTCATGCAATTAATCAAG GACATCCAAATGACCCTGCGGGATGAAATCAAAAGTGCATGTGAGTACCGT
genomic: GGAAGGAATTGCTCAGTATCCACTGTGGCGAGTTCATGCAATTAATCAAGgtttggtttc ... gtaaaactagGACATCCAAATGACCCTGCGGGATGAAATCAAAAGTGCATGTGAGTACCGT
atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.tgaattgtttgagatggctattttaccacatattgttttgcttttgtaaaactagGACATCCAAATGACCCTGCGGGATGAAATCAAAAGTGCATGTGAGTACCGTCCATTTGAGAAGTGCGATTACATTTCAAGAATATCTAATGAGATCTGTT
cttttgt CT-rich tract
atattgtttt 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
aagttatcactctaactaatcaatttttgaatctgatgctggatttgaattgtttgagatggctattttaccacatattgttttgcttttgtaaaactagGACATCCAAATGACCCTGCGGGATGAAATCAAAAGTGCATGTGAGTACCGTCCATTTGAGAAGTGCGATTACATTTCAAGAATATCTAATGAGATCTGTT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGAAGT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GAGATC
- - - -cactcta
- - - - - - - - - - - - - - - - - gatgctg
- - - - - - - - - - - - - - - - - - - - - - - - - - - - -gatggct
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - ccacata