Sequence
atgc intronic sequence ATGC exonic sequenceTTTGGTGGATCTTACCAGTCGTGCACTTGCTCGAATAATTGAAGGGAAAACACCGGAGGAGATACGTGATATATTTCATTTGCCTGATGATCTTACAGAGgtgtctggtgcttgtgagaactctgtatgccaattatatctttttggattttctattttcatttctcacgcattcttttgatccag
Basic information
species | Glycine max |
transcript | GLYMA03G01090.2 |
intron # | 3 |
splice site | 5' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GLYMA03G01090.2 (Glycine max), 5'ss of exon 3
lower sequence: LOC_Os03g01660.1 (Oryza sativa), 5'ss of exon 4
TTTGGTGGATCTTACCAGTCGTGCACTTGCTCGAATAATTGAAGGGAAAACACCGGAGGAGATACGTGATATATTTCATTTGCCTGATGATCTTACAGAGgtgtctggtgcttgtgagaactctgtatgccaattatatctttttggattttctattttcatttctcacgcattcttttgatccag
||||| |||||||||||||| ||||||||||||||||||||||| || ||||| ||||| || |||||||| || |||||||| ||||| | |||||||| || ||| || ||| || | | | | ||| | | | | | || |||||
ATTGGTTGATCTTACCAGTCGAGCACTTGCTCGAATAATTGAAGGAAAGACACCTGAGGAAATTCGTGATATTTTCCATTTGCCAGATGACTTAACAGAGgtacaaatcgcatgt-----ctgcttatagttatca-gcatgtattgatgcttactgtggaacttgcattcattcag---------
upper sequence: GLYMA03G01090.2 (Glycine max), 5'ss of exon 3
lower sequence: GRMZM2G109725_T03 (Zea mays), 5'ss of exon 4
TTTGGTGGATCTTACCAGTCGTGCACTTGCTCGAATAATTGAAGGGAAAACACCGGAGGAGATACGTGATATATTTCATTTGCCTGATGATCTTACAGAGgtgtctggtgcttgtgagaactctgtatgccaattatatctttttggattttctattttcatttctcacgcattcttttgatccag
| || |||||||| ||||| || ||||||||||| |||||||| || ||||| ||||| || ||||| || || || || || ||||| | |||||||| | |||| | | | || | ||| || ||| || | | || | ||| || || ||
ACTTGTTGATCTTACTAGTCGAGCTCTTGCTCGAATTATTGAAGGAAAGACACCTGAGGAAATCCGTGACATTTTCCACTTACCAGATGACTTAACAGAGgt-tagagtgccttctatagctttagatgtgaa----atcatt---aaatacttactgtcaaaacttacatgccctcag-------
upper sequence: GLYMA03G01090.2 (Glycine max), 5'ss of exon 3
lower sequence: GRMZM2G055785_T01 (Zea mays), 5'ss of exon 4
TTTGGTGGATCTTACCAGTCGTGCACTTGCTCGAATAATTGAAGGGAAAACACCGGAGGAGATACGTGATATATTTCATTTGCCTGATGATCTTACAGAGgtgtctggtgcttgtgagaactctgtatgccaattatatctttttggattttctattttcatttctcacgcattcttttgatccag
| || |||||||| | || || ||||||||||| |||||||| || ||||| ||||| || ||||| || || ||||| || |||||| | |||||||| | ||| || | | | | || ||| || || | |||| ||| || || || | |
ACTTGTTGATCTTACTGGCCGAGCGCTTGCTCGAATCATTGAAGGAAAGACACCTGAGGAAATTCGTGACATTTTCCATTTACCAGATGATTTAACAGAGgt-tagagtgttttctatagttttagatattgatt------cattaaatact-tattgtcaaaacttac--atccactcag-----
upper sequence: GLYMA03G01090.2 (Glycine max), 5'ss of exon 3
lower sequence: AT3G61415.2 (Arabidopsis thaliana), 5'ss of exon 4
TTTGGTGGATCTTACCAGTCGTGCACTTGCTCGAATAATTGAAGGGAAAACACCGGAGGAGATACGTGATATATTTCATTTGCCTGATGATCTTACAGAGgtgtctggtgcttgtgagaactctgtatgccaattata--tctttttggattttctattttcatttctcac-gcattcttttgatccag
||||| |||||||| |||||||| ||||| ||||| ||||| || ||||| || ||||||||||| || |||||||||||||||||||| ||||| ||||| | | |||| | |||| | | | | || | | || | |||||| || | | | | |
GTTGGTTGATCTTACTAGTCGTGCCCTTGCACGAATTATTGAGGGAAAAACCCCTGAGGAGATACGCGAAATATTTCATTTGCCTGATGACCTTACTGAGgtatgttgtgcccaaatcatctctttttaggaggcgtcattcccatctgcttctatattttagctttttgttacgatttatcag-----
upper sequence: GLYMA03G01090.2 (Glycine max), 5'ss of exon 3
lower sequence: AT2G45950.1 (Arabidopsis thaliana), 5'ss of exon 4
TTTGGTGGATCTTACCAGTCGTGCACTTGCTCGAATAATTGAAGGGAAAACACCGGAGGAGATACGTGATATATTTCATTTGCCTGATGATCTTACAGAGgtgtctggtgcttgtgagaactctgtatgccaattatatctttttggattttctattttcatttctcacgcattcttttgatccag
|||||| |||||||| ||||| |||||||| |||| |||||||| |||| || ||||||||||| || |||||||||||||||||||| ||||| ||||| | | ||| | | | | | ||| | | || | || || | | || | | ||| ||| ||| ||| ||
TTTGGTTGATCTTACTAGTCGCGCACTTGCAAGAATCATTGAAGGAAAAAACCCTGAGGAGATACGAGAAATATTTCATTTGCCTGATGACCTTACTGAGgtat---gcgctattaaatattgag-atgt--gtcttctccatctg--cttcgtttcttgactgctctttgattgttt--atctag
upper sequence: GLYMA03G01090.2 (Glycine max), 5'ss of exon 3
lower sequence: Vv15s0046g02450.t01 (Vitis vinifera), 5'ss of exon 3
TTTGGTGGATCTTACCAGTCGTGCACTTGCTCGAATAATTGAAGGGAAAACACCGGAGGAGATACGTGATATATTTCATTTGCCTGATGATCTTACAGAGgtgtctggtgcttgtgagaactctgtatgccaattatatctttttggattttctattttcatttctcacgcattcttttgatccag
|||||| ||||||||||| ||||||||||| ||||| |||||||||||||| || |||||||||||||| | ||||||||| ||||||||||||||||||||| | | || || || | | || | | |||| ||| ||| || || || ||||| |||
TTTGGTTGATCTTACCAGCCGTGCACTTGCACGAATGATTGAAGGGAAAACCCCAGAGGAGATACGTGAAACATTTCATTTACCTGATGATCTTACAGAGgtgagaagcgtttatgg---ctttcttcttagcttgttttttttctcttttattatattaat-----acagtcgtgattgatacagMapped 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|193534410|gb|FK491637.1|FK491637EST: CACCGGAGGAGATACGTGATATATTTCATTTGCCTGATGATCTTACAGAG GAAGAAAAGTTGGAGCCCTTGAGAAATATAACGGCTGACCCAAGGATCAGG
genomic: CACCGGAGGAGATACGTGATATATTTCATTTGCCTGATGATCTTACAGAGgtgtctggtg ... tttgatccagGAAGAAAAGTTGGAGCCCTTGAGAAATATAACGGCTGACCCAAGGATCAGG
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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
TTTGGTGGATCTTACCAGTCGTGCACTTGCTCGAATAATTGAAGGGAAAACACCGGAGGAGATACGTGATATATTTCATTTGCCTGATGATCTTACAGAGgtgtctggtgcttgtgagaactctgtatgccaattatatctttttggattttctattttcatttctcacgcattcttttgatccag
- - - - - - - - - - - - - - - - - - - - - - - - - - - GGAGGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - GAGGAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - AGGAGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - GGAGAT