Sequence
atgc intronic sequence ATGC exonic sequenceATATATGGCAATGGTCTGAACTAACTGGCTTCGGTGACTTGCCTTCACCACGAGATTTTGCTGCAGCTTCAGCAGTTGGAAACCGTAAAATTGTTATgtgaggcatatagtgtttgatttgactggtttttttaatgctaattagctgaagagtaaattaaaacatgtagtgaggtggattctgtgtgatgcag
Basic information
species | Glycine max |
transcript | GLYMA20G32900.1 |
intron # | 5 |
splice site | 5' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GLYMA20G32900.1 (Glycine max), 5'ss of exon 5
lower sequence: LOC_Os03g61950.1 (Oryza sativa), 5'ss of exon 5
ATATATGGCAATGGTCTGAACTAACTGGCTTCGGTGACTTGCCTTCACCACGAGATTTTGCTGCAGCTTCAGCAGTTGGAAACCGTAAAATTGTTATgtgaggcatatagtgtttgatttgactggtttttttaatgctaattagctgaagagtaaattaaaacatgtagtgaggtggattctgtgtgatgcag
| |||||||||||||| || |||| ||||| ||||| | || ||||| ||||| |||||||| |||||||| | |||||| | ||||||||||||| || || | | || | | ||| | | || || | | || | | ||| || | | ||| |||| |||
ACATATGGCAATGGTCAGAGTTAACCGGCTTTGGTGATCTACCATCACCTCGAGAGTTTGCTGCTGCTTCAGCCATAGGAAACAGAAAAATTGTTATgtaag---cattccatctaatgcaagtttccctttcatttctgggta-ccatcgctta---tgagttatgaagaacatttggttcatcctgattcag
upper sequence: GLYMA20G32900.1 (Glycine max), 5'ss of exon 5
lower sequence: GRMZM2G351160_T01 (Zea mays), 5'ss of exon 5
ATATATGGCAATGGTCTGAACTAACTGGCTTCGGTGACTTGCCTTCACCACGAGATTTTGCTGCAGCTTCAGCAGTTGGAAACCGTAAAATTGTTATgtgaggcatatagtgtttgatttgactggtttttttaatgctaattagctgaagagtaaattaaaacatgtagtgaggtggattctgtgtgatgcag
| ||||||||||||| || | |||||||| ||||| || || ||||||||||| |||||||| |||||||| | |||||| | || |||||||||| || | | |||||| || | | | | || || || | | | || || | | | | | |||| |
ACTTATGGCAATGGTCGGAGATGACTGGCTTTGGTGATTTACCGTCACCACGAGAGTTTGCTGCTGCTTCAGCCATAGGAAACAGAAAGATTGTTATgtaag-----cattatttgatatg-cacatccctgtgatactttttgtactattactt--ttgaagaacgctct-atctttattcag----------
upper sequence: GLYMA20G32900.1 (Glycine max), 5'ss of exon 5
lower sequence: GRMZM2G468485_T01 (Zea mays), 5'ss of exon 3
ATATATGGCAATGGTCTGAACTAACTGGCTTCGGTGACTTGCCTTCACCACGAGATTTTGCTGCAGCTTCAGCAGTTGGAAACCGTAAAATTGTTATgtgaggcatatagtgtttgatttgactggtttttttaatgctaattagctgaagagtaaattaaaacatgtagtg--aggtggattctgtgtgatgcag-------
| ||||||||||||| || | |||||||| ||||| || || ||||||||||| |||||||| |||||||| | |||||| || |||||||||| || | | |||||| || | | | | | |||| ||| | || ||| | | | | | || |
ACTTATGGCAATGGTCGGAGATGACTGGCTTTGGTGATTTACCGTCACCACGAGAGTTTGCTGCTGCTTCAGCCATAGGAAACAAAAAGATTGTTATgtaag-----cattatttgatatg-cacatccctgtggtactaacatcgtgagaatgctatggtgttgcccagtttcatttaagtccaagaagctggtgaagatgg
upper sequence: GLYMA20G32900.1 (Glycine max), 5'ss of exon 5
lower sequence: AT2G36360.1 (Arabidopsis thaliana), 5'ss of exon 5
ATATATGGCAATGGTCTGAACTAACTGGCTTCGGTGACTTGCCTTCACCACGAGATTTTGCTGCAGCTTCAGCAGTTGGAAACCGTAAAATTGTTATgtgaggcatatagtgtttgatttgactggtttttttaatgctaattagctgaagagtaaattaaaacatgtagtgaggtggattctgtgtgatgcag
|||||||||| ||||||||| | ||| ||||||| ||||| ||| |||| || ||||||||||| ||| | || |||| | || |||||||| ||| | | || | || || | | | || ||| ||| | | ||| | | ||| | | ||| | |
ATATATGGCAGTGGTCTGAATTGACTAGCTTCGGCGACTTACCTACACCTCGTGATTTTGCTGCCGCTGCTGCTATTGGGAGCCAAAAAATTGTGTTgt-atgtatcaaactttagacgtaatca-tcttcttaggtttaa---gtttaagcttgcctgcctgcattactaaacctagatcgttggcag-----
upper sequence: GLYMA20G32900.1 (Glycine max), 5'ss of exon 5
lower sequence: AT2G36360.5 (Arabidopsis thaliana), 5'ss of exon 5
---ATATATGGCAATGGTCTGAACTAACTGGCTTCGGTGACTTGCCTTCACCACGAGATTTTGCTGCAGCTTCAGCAGTTGGAAACCGTAAAATTGTTATgtgaggcatatagtgtttgatttgactggtttttttaatgctaattagctgaagagtaaattaaaacatgtagtgaggtggattctgtgtgatgcag
|||||||||| ||||||||| | ||| ||||||| ||||| ||| |||| || ||||||||||| ||| | || |||| | || |||||||| ||| | | || | || || | | | || ||| ||| | | ||| | | ||| | | ||| | |
CAGATATATGGCAGTGGTCTGAATTGACTAGCTTCGGCGACTTACCTACACCTCGTGATTTTGCTGCCGCTGCTGCTATTGGGAGCCAAAAAATTGTGTTgt-atgtatcaaactttagacgtaatca-tcttcttaggtttaa---gtttaagcttgcctgcctgcattactaaacctagatcgttggcag-----
upper sequence: GLYMA20G32900.1 (Glycine max), 5'ss of exon 5
lower sequence: Vv13s0074g00620.t01 (Vitis vinifera), 5'ss of exon 6
ATATATGGCAATGGTCTGAACTAACTGGCTTCGGTGACTTGCCTTCACCACGAGATTTTGCTGCAGCTTCAGCAGTTGGAAACCGTAAAATTGTTATgtgaggcatatagtgtttgatttgactggtttttttaatgctaattagctgaagagtaaattaaaacatgtagtgaggtggattctgtgtgatgcag
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ATATATGGCAATGGTCAGAGCTGACCAGTTTTGGTGACTTGCCTTCACCAAGGGATTTTGCAGCTGCTTCAGCTATTGGAAACCGGAAAATTGTTATgtgag-tgt-taataattgcatcca-tgatcaaccaactgat--ttaatttttttttc--ctaacttgcattctaaagctaact-tatttaatgcagMapped 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|298180189|gb|HO025404.1|HO025404EST: GCAGCTTCAGCAGTTGGAAACCGTAAAATTGTTAT GTATGGTGGATGGGATGGAAAAAAGTGGTTATCTGATGTTTATGTCTTGGA
genomic: GCAGCTTCAGCAGTTGGAAACCGTAAAATTGTTATgtgaggcata ... tgtgatgcagGTATGGTGGATGGGATGGAAAAAAGTGGTTATCTGATGTTTATGTCTTGGA
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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
ATATATGGCAATGGTCTGAACTAACTGGCTTCGGTGACTTGCCTTCACCACGAGATTTTGCTGCAGCTTCAGCAGTTGGAAACCGTAAAATTGTTATgtgaggcatatagtgtttgatttgactggtttttttaatgctaattagctgaagagtaaattaaaacatgtagtgaggtggattctgtgtgatgcag
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - TGCTGC
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - CTGCAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GCAGCT