Sequence
atgc intronic sequence ATGC exonic sequenceGGTCATCTTCCTTACTGGATTGGTGTCAATGATATTAATGCGAACATTGAGAAATGACTATGCAAAGTATGCCCGGGAAGATGATGATTTGGAAACTCTGgttaggctttcttgatgtttgtctgttactattattattattatttttaaaatttatgtgtggaacatagattctgttttcctggaaagttcattgtggttctgattgtcaattcttgttcaacccccaaatatttccag
Basic information
species | Glycine max |
transcript | GLYMA08G20100.1 |
intron # | 7 |
splice site | 5' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GLYMA08G20100.1 (Glycine max), 5'ss of exon 7
lower sequence: LOC_Os12g07670.1 (Oryza sativa), 5'ss of exon 7
GGTCATCTTCCTTACTGGATTGGTGTCAATGATATTAATGCGAACATTGAGAAATGACTATGCAAAGTATGCCCGGGAAGATGATGATTTGGAAACTCTGgttaggctttcttgatgtttgtctgttactattattattattatttttaaaatttatgtgtggaacatagattctgttttcctggaaagttcattgtggttctgattgtcaattcttgttcaacccccaaatatttccag
||| || ||||| ||||| ||||| ||||||||||| ||||| ||||||||||||||||||||||||||||| || |||||||||||| |||| | ||||| || ||| ||||| ||| ||| ||| | || || || || |||| | ||||||| | | || | | || || |||| ||||| | || ||
GGTTATTTTCCTCACTGGTTTGGTTTCAATGATATTGATGCGGACATTGAGAAATGACTATGCAAAGTATGCTCGTGAAGATGATGATCTGGAGTCACTGgtatatctaccttt-tgtttaattgt----------attcttagctctagcatctaagt-tgga--------tttgttttcacctagtgc-cact-cgattgggacc-tcaagtcttgatattccttttgttag------
upper sequence: GLYMA08G20100.1 (Glycine max), 5'ss of exon 7
lower sequence: LOC_Os02g34690.1 (Oryza sativa), 5'ss of exon 7
GGTCATCTTCCTTACTGGATTGGTGTCAATGATATTAATGCGAACATTGAGAAATGACTATGCAAAGTATGCCCGGGAAGATGATGATTTGGAAACTCTGgttaggctttcttgatgtttgtctgttactattattattattatttttaaaatttat-gtgtggaacatagattctgttttcctggaaagttcattgtggttctgattgtcaattcttgttcaacccccaaatatttccag
||| ||||| || ||||| | ||||||||||| || ||||| || | |||||||||||||||||||||||||| || ||||||||| | ||||||||||| | |||| | ||| | ||| || || | ||| | | | || | |||| || || || ||| | || ||| || |
GGTTATCTTTCTCACTGGGCTAGTGTCAATGATTTTGATGCGCACTCTAAGAAATGACTATGCAAAGTATGCCCGCGACGATGATGATCTTGAAACTCTGgtga-------ttgac---tatctat-------attcaaataatgtacaaattctgttatgcgcttcatacatcct--cttgctgacatttttattcaatatcag------------------------------------
upper sequence: GLYMA08G20100.1 (Glycine max), 5'ss of exon 7
lower sequence: LOC_Os11g07910.1 (Oryza sativa), 5'ss of exon 7
GGTCATCTTCCTTACTGGATTGGTGTCAATGATATTAATGCGAACATTGAGAAATGACTATGCAAAGTATGCCCGGGAAGATGATGATTTGGAAACTCTGgttaggctttcttgatgtttgtctgttactattattatta-ttatttttaaaatttatgtgtggaacatagattctgttttcctggaaagttcattgtggttctgattgtcaattcttgttcaacccccaaatatttccag
||| || ||| | ||||||||||| ||||||||||| ||| | || |||||||||| ||||| || ||||| || |||||||||||| |||| | || || || | || | || | | || ||| || | || | | | | | | | | | || ||||| | | | || ||| | |
GGTTATTTTCTTGACTGGATTGGTATCAATGATATTGATGAGGACGCTGAGAAATGATTATGCGAAATATGCTCGTGAAGATGATGATCTGGAGTCGCTTgtaag---tactgaacgtgaagcc-tcacgcttacaatcacttgtgtattccctctggtagcaggagtcattttttgtttactttaatggtct-ttgagatgtaa------------------------------------
upper sequence: GLYMA08G20100.1 (Glycine max), 5'ss of exon 7
lower sequence: GRMZM2G165631_T01 (Zea mays), 5'ss of exon 6
GGTCATCTTCCTTACTGGATTGGTGTCAATGATATTAATGCGAACATTGAGAAATGACTATGCAAAGTATGCCCGGGAAGATGATGATTTGGAAACTCTGgttaggctttcttgatgtttgtctgttactattattattattatttttaaaatttatgtgtggaacatagattctgttttcctggaaagttcattgtggttctgattgtcaattcttgttcaacccccaaatatttccag
||| ||||| || |||||| | |||||||||||| | ||||| || | |||||||| ||||||||||||||||| || ||||||||| | ||||||||||| || | | | || | || | |||| | || |||| || ||||||| || ||||| ||| | |||| || | || ||| || || | | ||
GGTTATCTTTCTCACTGGACTAGTGTCAATGATACTGATGCGGACTCTAAGAAATGATTATGCAAAGTATGCCCGTGATGATGATGATATTGAAACTCTGgtgagtttctatatatatgatcatggtgttatt-ccagtagcgtttt-aatatttatgc---------aggttctgattt--taattagtttatacttgtatcctttgctgatatacatt--agtttgtattag------
upper sequence: GLYMA08G20100.1 (Glycine max), 5'ss of exon 7
lower sequence: GRMZM2G026231_T01 (Zea mays), 5'ss of exon 7
GGTCATCTTCCTTACTGGATTGGTGTCAATGATATTAATGCGAACATTGAGAAATGACTATGCAAAGTATGCCCGGGAAGATGATGATTTGGAAACTCTGgttag--gctttcttgatgtttgtctgttact-attattattattatttttaaaatttatgtgtggaacatagattctgttttc-ctggaaagttcattgtggttctgattgtca-attcttgttcaacccccaaatatttccag
||| || ||||| ||||| ||||| || |||||||| ||||| || ||||||||||| ||||| |||||||| || |||||||||||| | || | ||||| || ||| || | | || | | | ||| || | | | |||| | | |||||| || | | | | | |||||| | | || | | ||| ||| |
GGTTATTTTCCTAACTGGTTTGGTTTCGATGATATTGATGCGGACTTTGAGAAATGATTATGCCAAGTATGCTCGTGAAGATGATGATCTAGAGTCCCTGgtgaggagctgaattctggcgcgcctactgtttaactgtatgcttgatagctagagaaatgttttcac--tagattttgctggctccccccactccattgttgcttaagttatgatattacctttctag----------------
upper sequence: GLYMA08G20100.1 (Glycine max), 5'ss of exon 7
lower sequence: GRMZM2G087212_T01 (Zea mays), 5'ss of exon 7
GGTCATCTTCCTTACTGGATTGGTGTCAATGATATTAATGCGAACATTGAGAAATGACTATGCAAAGTATGCCCGGGAAGATGATGATTTGGAAACTCTGgttaggcttt--cttgatgtttgtctgttactattattattattatttttaaaatttatgtgtggaacatagatt-ctgttttcctggaaagttcattgtggttctgattgtcaattcttgttcaacccccaaatatttccag
||| || ||| | ||||| || |||||||||||||| ||| | ||| | |||||||| |||||||| ||||| || |||||||||||| ||||| | || || || | | || | || | ||| |||| ||| | ||| | || || ||| | ||||| || | ||
GGTTATTTTCTTGACTGGTTTAGTGTCAATGATATTGATGAGGACACTAAGAAATGATTATGCAAAATATGCTCGTGAAGATGATGATCTGGAATCACTTgtaagttctgaacctgcaatccgtagcacatcgatatggttatatatttctcattttgtctgct-aatataactcattgtttgtctttttgcgtttttaca------------------------------------------
upper sequence: GLYMA08G20100.1 (Glycine max), 5'ss of exon 7
lower sequence: GRMZM2G420310_T01 (Zea mays), 5'ss of exon 7
GGTCATCTTCCTTACTGGATTGGTGTCAATGATATTAATGCGAACATTGAGAAATGACTATGCAAAGTATGCCCGGGAAGATGATGATTTGGAAACTCTGgttaggctttcttgatgtttgtctgttactattattattattatttttaaaatttatgtgtggaacatagattctgttttcctggaaagttcattgtggttctgattgtcaattcttgttcaacccccaaatatttccag
||| || ||||| ||||| ||||| || |||||||| ||||| || |||||||| || ||||| || ||||| || |||||||||||| | || | ||||| ||| | || || |||| | ||| | || || | || ||| | | | | | | || | | || || ||| || | | | |
GGTTATTTTCCTAACTGGTTTGGTTTCGATGATATTGATGCGGACTTTGAGAAACGATTATGCCAAATATGCTCGTGAAGATGATGATCTAGAGTCCCTGgtgaggat--ctgaat-----tctggtgtacttactgtt--taactgtatgattaaggggctg----tttggtttgctacctaagacgccacaacgtg--cctaacttttctgcc-------------------------
upper sequence: GLYMA08G20100.1 (Glycine max), 5'ss of exon 7
lower sequence: Vv12s0035g00280.t01 (Vitis vinifera), 5'ss of exon 7
GGTCATCTTCCTTACTGGATTGGTGTCAATGATATTAATGCGAACATTGAGAAATGACTATGCAAAGTATGCCCGGGAAGATGATGATTTGGAAACTCTGgttaggctttcttgatgtttgtctgttactattattattattatttttaaaatttatgtgtggaacatagattctgttttcctggaaagttcattgtggt-tctgattgtcaattcttgttcaacccccaaatatttccag
||| |||||||| ||||| |||||||||||||| ||||||||||| | |||||||||||||| || ||||| ||||||||||||||| |||| |||||||| | | ||| | ||||| | |||| || || | |||| | ||||| | | ||| ||| || || |||| | | | ||| |||
GGTTATCTTCCTCACTGGTTTGGTGTCAATGATCTTAATGCGAACCCTTAGAAATGACTATGCTAAATATGCTCGGGAAGATGATGATCTGGAGACTCTGgt--gacactctcaacttttgttta----------tattctttttcctttaattggtttgtgggatttccatttcttttaattgtaa---ccattttaacatgtaattctcag----------------------------
upper sequence: GLYMA08G20100.1 (Glycine max), 5'ss of exon 7
lower sequence: Vv18s0041g00680.t01 (Vitis vinifera), 5'ss of exon 7
GGTCATCTTCCTTACTGGATTGGTGTCAATGATATTAATGCGAACATTGAGAAATGACTATGCAAAGTATGCCCGGGAAGATGATGATTTGGAAACTCTGgttaggctttcttga-tgtttgtctgttactattattattattatttttaaaatttatg--tgtggaacatagattctgttttcctggaaagttcattgtggttctgattgtcaattcttgttcaacccccaaatatttccag
||| || ||||| |||||||||||||| ||||||||||||||||| | ||||||| ||||| || ||||| |||||||||||||||||||| |||||||| | ||| | || | | ||| |||| |||| || || || ||||||| || ||| | | | ||| ||| | | | || | | |||||||
GGTTATTTTCCTCACTGGATTGGTGTCTATGATATTAATGCGAACTCTTCGAAATGATTATGCCAAATATGCTCGGGAAGATGATGATTTGGAGACTCTGgtaatgctattttaagttcttgactgtgtctatgtttttttttttttttaatatatatagtccttaagtgaaaattatgtatctt---attttccactatat-----attgtcag----------------------------
upper sequence: GLYMA08G20100.1 (Glycine max), 5'ss of exon 7
lower sequence: EFJ15096 (Selaginella moellendorffii), 5'ss of exon 7
GGTCATCTTCCTTACTGGATTGGTGTCAATGATATTAATGCGAACATTGAGAAATGACTATGCAAAGTATGCCCGGGAAGATGATGATTTGGAAACTCTGgttaggctttcttgatgtttgtctgttactattattattattatttttaaaatttatgtgtggaacatagattctgttttcctggaaagttcattgtggttctgattgtcaattcttgttcaacccccaaatatttccag
|||||| || || ||||| ||||||| |||||| | ||| |||| ||| |||||||||||| ||||||||||| || || |||||| | || |||||||| | || ||||| | || | | || | | |||| |
GGTCATATTTCTGACTGGCCTGGTGTCTATGATACTCATGAGAACGCTGAAAAATGACTATGCCAAGTATGCCCGCGAGGAAGATGATCTCGAGACTCTGgtacg------tttatgtt-gcgcattgcagtgtttgaaagaacttttccag----------------------------------------------------------------------------------------
upper sequence: GLYMA08G20100.1 (Glycine max), 5'ss of exon 7
lower sequence: EFJ37593 (Selaginella moellendorffii), 5'ss of exon 7
GGTCATCTTCCTTACTGGATTGGTGTCAATGATATTAATGCGAACATTGAGAAATGACTATGCAAAGTATGCCCGGGAAGATGATGATTTGGAAACTCTGgttaggctttcttgatgtttgtctgttactattattattattatttttaaaatttatgtgtggaacatagattctgttttcctggaaagttcattgtggttctgattgtcaattcttgttcaacccccaaatatttccag
|||||| || || ||||| ||||||| |||||| | ||| |||| ||| |||||||||||| ||||||||||| || || |||||| | || |||||||| | || ||||| | || | | | | | |||| |
GGTCATATTTCTGACTGGCCTGGTGTCTATGATACTCATGAGAACGCTGAAAAATGACTATGCGAAGTATGCCCGCGAGGAAGATGATCTCGAGACTCTGgtacg------tttatgtt-gcgcattgcagtggctgaaagaacttttccag----------------------------------------------------------------------------------------Mapped 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|207797994|gb|GD768096.1|GD768096EST: GAAATGACTATGCAAAGTATGCTCGGGAAGATGGTGATTTGGAAACTCTG GAAAGAGATGTTAGTGAAGAATCTGGCTGGAAACTTGTGCATGGTGATGTT
genomic: GAAATGACTATGCAAAGTATGCCCGGGAAGATGATGATTTGGAAACTCTGgttaggcttt ... atatttccagGAAAGAGATGTTAGTGAAGAATCTGGCTGGAAACTTGTGCATGGTGATGTT
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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
GGTCATCTTCCTTACTGGATTGGTGTCAATGATATTAATGCGAACATTGAGAAATGACTATGCAAAGTATGCCCGGGAAGATGATGATTTGGAAACTCTGgttaggctttcttgatgtttgtctgttactattattattattatttttaaaatttatgtgtggaacatagattctgttttcctggaaagttcattgtggttctgattgtcaattcttgttcaacccccaaatatttccag
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GCAAAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GGAAGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGATG