Sequence
atgc intronic sequence ATGC exonic sequenceGTAGGATCAATTGAAGAGGTGATTTTAGAGCGTGCAAAACAAAAGATGGGCATTGATGCCAAAGTCATCCAGGCAGGTCTTTTCAACACAACTTCAACAGgtttgtagtttttttatatttgtgtcttgtcctaggaatatctaccaacagttattttttggctaaaggtggaaagaggagggcaggccggcaggggagg...
Basic information
species | Glycine max |
transcript | GLYMA20G28120.1 |
intron # | 12 |
splice site | 5' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GLYMA20G28120.1 (Glycine max), 5'ss of exon 12
lower sequence: LOC_Os05g05230.1 (Oryza sativa), 5'ss of exon 11
GTAGGATCAATTGAAGAGGTGATTTTAGAGCGTGCAAAACAAAAGATGGGCATTGATGCCAAAGTCATCCAGGCAGGTCTTTTCAACACAACTTCAACAGgtttg--tagtttttttat----atttgtgtcttgtcctaggaatatctaccaacagttattttttggctaaaggtggaaagaggagggcaggccggcaggggagg
|| || ||||||||||| | ||| || || ||||||||||| |||||||| |||||||| ||||| |||||||| || || ||||||||||| || ||||||| | || | | | ||| | | || |||| || | ||| | | | | | | | | |
GTTGGCTCAATTGAAGAAGAGATCTTGGACCGTGCAAAACAGAAGATGGGTATTGATGCAAAAGTTATCCAGGCTGGGCTGTTCAACACAACCTCCACAGgttagattaaatcctcgaacaaaattcatacttcctctgtttcatattataagactttctagcattgcccacattcacatatatgttaatgaatctagat------
upper sequence: GLYMA20G28120.1 (Glycine max), 5'ss of exon 12
lower sequence: GRMZM2G097289_T02 (Zea mays), 5'ss of exon 6
GTAGGATCAATTGAAGAGGTGATTTTAGAGCGTGCAAAACAAAAGATGGGCATTGATGCCAAAGTCATCCAGGCAGGTCTTTTCAACACAACTTCAACAGgtttgtagtttttttatatttgtgtcttgtcctaggaatatctacca-acagttattttttggctaaaggtggaaagaggagggcaggccggcaggggagg
|| || || |||||||| | ||| | || |||||||||||||||||||| || ||||| ||||| |||||||| || | || ||||||||||| |||||| || | | || || || | | | ||||| | || | | | | | | | | | | | |||
GTCGGCTCCATTGAAGAAGAGATCCTGGACCGTGCAAAACAAAAGATGGGTATCGATGCAAAAGTTATCCAGGCTGGGTTGTTTAACACAACTTCCACAGgtgagtttgagtgatctaattcctatttatttaatttttgtctactacacgactggaactcgcatgacattttcacgttcatttcccacta-cag------
upper sequence: GLYMA20G28120.1 (Glycine max), 5'ss of exon 12
lower sequence: GRMZM2G102625_T03 (Zea mays), 5'ss of exon 4
GTAGGATCAATTGAAGAGGTGATTTTAGAGCGTGCAAAACAAAAGATGGGCATTGATGCCAAAGTCATCCAGGCAGGTCTTTTCAACACAACTTCAACAGgtttgtagtttttttatatttgtgtcttgtcctaggaatatctaccaacagttattttttggctaaaggtggaaagagg----agggcaggccggcaggggagg
|| || ||||||||||| | ||| || || ||||| ||||| |||||||| |||||||| ||||| |||||||| || | || ||||| || || |||||| || || | || || | | || | ||| | | ||| | | | | || | | | | | || ||
GTTGGTTCAATTGAAGAAGAGATATTGGATCGTGCGAAACAGAAGATGGGTATTGATGCAAAAGTAATCCAGGCTGGGTTGTTTAACACGACCTCCACAGgtgagtttggttgctctagttcctacataat-taattttctctgcttgtacacattgtatcgaaactcatgatattatattttaatgttcatccccactacag-
upper sequence: GLYMA20G28120.1 (Glycine max), 5'ss of exon 12
lower sequence: AT5G19310.1 (Arabidopsis thaliana), 5'ss of exon 11
GTAGGATCAATTGAAGAGGTGATTTTAGAGCGTGCAAAACAAAAGATGGGCATTGATGCCAAAGTCATCCAGGCAGGTCTTTTCAACACAACTTCAACAGgtttgtagtttttttatatttgtgtcttgtcctaggaatatctaccaacagttattttttggctaaaggtggaaagaggagggcaggccggcaggggagg
| ||||| |||||||| || || || ||||||||||| |||||||||||||| ||||| |||||||| || ||||| || |||||||||||||| || ||| ||| || ||||| | | | || || || ||| |||| | |||| | ||| | | | | | |||
ATTGGATCCATTGAAGAAGTAATATTGGAGCGTGCAAAGCAAAAGATGGGCATCGATGCGAAAGTCATACAAGCAGGGCTCTTCAACACAACTTCTACTGgtaaaaagtcttcatatatatatat----tcttatcaa---ctaaaaaca-tgatttggagactacatgctaatctctttgaatca-tcaacag------
upper sequence: GLYMA20G28120.1 (Glycine max), 5'ss of exon 12
lower sequence: AT3G06010.1 (Arabidopsis thaliana), 5'ss of exon 11
GTAGGATCAATTGAAGAGGTGATTTTAGAGCGTGCAAAACAAAAGATGGGCATTGATGCCAAAGTCATCCAGGCAGGTCTTTTCAACACAACTTCAACAGgtttgtagtttttttatatttgtgtcttgtcctaggaatatc-taccaaca-gttattttttggctaaaggtggaaagaggagggcaggccggcaggggagg
|| || || ||||||| || || || ||||||||||| ||||||||||||||||| ||||||||||| || || || ||||||||||||||||| || ||| ||| | | | | | | | | | | || | | | | || | | | | | | | || | || | |
GTTGGCTCTGTTGAAGAAGTAATATTGGAGCGTGCAAAGCAAAAGATGGGCATTGACGCCAAAGTCATACAAGCTGGACTTTTCAACACAACTTCCACTGgtatgtctgtccgaaagaacaatatgagggcttctgctttctatatcgatatggtaatctcttgatgtggtttttgtgattatatcaa--cag---------
upper sequence: GLYMA20G28120.1 (Glycine max), 5'ss of exon 12
lower sequence: Vv05s0020g02960.t01 (Vitis vinifera), 5'ss of exon 11
GTAGGATCAATTGAAGAGGTGATTTTAGAGCGTGCAAAACAAAAGATGGGCATTGATGCCAAAGTCATCCAGGCAGGTCTTTTCAACACAACTTCAACAGgtttgtagtttttttatatttgtgtcttgtcctaggaatatctacca-acagttatttttt--ggcta--aaggtggaaagaggagggcaggccggcaggggagg-
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GTTGGATCAATTGAGGAGGTAATCTTGGAGCGTGCAAAACAAAAGATGGGCATTGATGCCAAGGTCATCCAGGCAGGATTGTTCAATACAACTTCCACAGgttcgtcactgtgctttaatttcat------cagtgattatcttttatgtggtcatttctttaaattagcaaaatggtttctatatgctatgctgcttcaaaatgaMapped 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|151405959|gb|EV275774.1|EV275774EST: CATTGATGCCAAAGTCATCCAGGCAGGTCTTTTCAACACAACTTCAACAG TCCAGGACAGAAGAGAAATGTTAGAAGAGATTATGCGTAGAGGTACAAGCT
genomic: CATTGATGCCAAAGTCATCCAGGCAGGTCTTTTCAACACAACTTCAACAGgtttgtagtt ... atttgtgcagCCCAGGACAGAAGAGAAATGTTAGAAGAGATTATGCGTAGAGGTACAAGCT
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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
GTAGGATCAATTGAAGAGGTGATTTTAGAGCGTGCAAAACAAAAGATGGGCATTGATGCCAAAGTCATCCAGGCAGGTCTTTTCAACACAACTTCAACAGgtttgtagtttttttatatttgtgtcttgtcctaggaatatctaccaacagttattttttggctaaaggtggaaagaggagggcaggccggcaggggagg
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -gaggagg