Sequence
atgc intronic sequence ATGC exonic sequenceCCGAGAGTTTACACATCGGGTAAAATCAGTTTCAATGGCTAAATTTAGTGCACAGGAAGTTAGTGCACTTCAAGAAGGAGGAAATCAGgtgtgaatgcttttgtgtgctaaaacttgctctagatatcttaagtcttactcatgttaagttgatagcaccctgcaattaacacatttcttaagttgattttcattatatctaatatttgcag
Basic information
species | Glycine max |
transcript | GLYMA05G35310.1 |
intron # | 4 |
splice site | 5' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GLYMA05G35310.1 (Glycine max), 5'ss of exon 4
lower sequence: LOC_Os02g11820.1 (Oryza sativa), 5'ss of exon 4
CCGAGAGTTTACACATCGGGTAAAATCAGTTTCAATGGCTAAATTTAGTGCACAGGAAGTTAGTGCACTTCAAGAAGGAGGAAATCAGgtgtgaatgcttttgtgtgctaaaacttgctctagat-atcttaagtcttactcatgttaagttgatagcaccctgcaattaacacatttcttaagttgattttcattatatctaatatttgcag
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CCGAGAGTTCACGCATCGAGCGAAGTCAGTTTCTATGGCTAAATTTACTGCACAGGAAGTTAGTGCCCTTCAAGAAGGAGGAAATGAGgtgacttgtcctctcttttctttttcatgttttctaccattttaggcctttctaatttgacatgtgttttgcataacctgtag------------------------------------------
upper sequence: GLYMA05G35310.1 (Glycine max), 5'ss of exon 4
lower sequence: LOC_Os05g45840.1 (Oryza sativa), 5'ss of exon 3
CCGAGAGTTTACACATCGGGTAAAATCAGTTTCAATGGCTAAATTTAGTGCACAGGAAGTTAGTGCACTTCAAGAAGGAGGAAATCAGgtgtgaatgcttttgtgtgctaaaacttgc-tctagatatcttaagtcttactcatgttaagttgatagcaccctgcaattaacacatttcttaagttgattttcattatatctaatatttgcag
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TCGGGAGTTCACTCATCGTGTAAAATCAATATCAATGGCTAAATTTACTTCTCAAGAAGTTTCTGCTCTTCAAGAAGGGGGAAACGAGgttggcttaataccattatttataatttaaatcctgatatgcttggtgt--ctgcttttaagtc--ttacaacatatatttttgatagttcag--------------------------------
upper sequence: GLYMA05G35310.1 (Glycine max), 5'ss of exon 4
lower sequence: GRMZM2G341732_T02 (Zea mays), 5'ss of exon 5
CCGAGAGTTTACACATCGGGTAAAATCAGTTTCAATGGCTAAATTTAGTGCACAGGAAGTTAGTGCACTTCAAGAAGGAGGAAATCAGgtgtga-atgcttttgtgtgctaaaacttgctctagatatcttaagtcttactcatgttaagttgatagcaccctgcaattaacacatttcttaagttgattttcattatatctaatatttgcag
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TCGGGAGTTCACGCATCGAGTAAAATCGGTTTCCATGGCCAAATTTACTGCACAAGAAGTTACTGCCCTTCAAGAAGGGGGGAATGAGgtaacatgtatctgtttttttttctacttttcccatcaatcccatgtcttctattcaacacggcattgattttgaaggagaatagaattggtgtaattga-------------------------
upper sequence: GLYMA05G35310.1 (Glycine max), 5'ss of exon 4
lower sequence: GRMZM2G043056_T01 (Zea mays), 5'ss of exon 4
CCGAGAGTTTACACATCGGGTAAAATCAGTTTCAATGGCTAAATTTAGTGCACAGGAAGTTAGTGCACTTCAAGAAGGAGGAAATCAGgtgtgaatgcttttgtgtgctaa--aacttgctctagatatcttaagtcttactcatgttaagttgatagcaccctgcaattaacacatttcttaagttgattttcattatatctaatatttgcag
|| |||||||||||||| |||||||| ||||| ||||| ||||||| ||||| |||||| ||| ||||||||||| || ||| |||| ||| | | || | ||||| | | | || | ||| | || | || ||| | | | ||||| |
TCGGGAGTTTACACATCGAGTAAAATCTGTTTCCATGGCCAAATTTACCGCACAAGAAGTTGCTGCCCTTCAAGAAGGGGGGAATGAGgtaacttgtcttgtatctgtttttcaactttccccatcaattccatgtc--atctat-tcaacatgacattgattt-tacttaacctgtag-----------------------------------
upper sequence: GLYMA05G35310.1 (Glycine max), 5'ss of exon 4
lower sequence: GRMZM2G136547_T01 (Zea mays), 5'ss of exon 2
CCGAGAGTTTACACATCGGGTAAAATCAGTTTCAATGGCTAAATTTAGTGCACAGGAAGTTAGTGCACTTCAAGAAGGAGGAAATCAGgtgtgaatgcttttgtgtgctaaaacttgctctagatatct-taagtcttactcatgttaagttgatagcaccctgcaattaacacatttcttaagttgattttcattatatctaatatttgcag
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CCGAGAGTTCAGTCATCGTGTAAAATCAGTATCAATGGCTAAATTCACTTCCCAAGAAGTTTCGGCACTTCTAGAAGGGGGCAATGAGgttcgcctaatattttat--taataatttagaaaggtctgtgtgatctttacagttacctaatattctgtttcttccag----------------------------------------------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|193365877|gb|FK328982.1|FK328982EST: CTAAATTTAGTGCACAGGAAGTTAGTGCACTTCAAGAAGGAGGAAATCAG CGTGCAAAGGAAATCTATTTTTAAAGAATGGGATCCACAACGTCATTCTTT
genomic: CTAAATTTAGTGCACAGGAAGTTAGTGCACTTCAAGAAGGAGGAAATCAGgtgtgaatgc ... atatttgcagCGTGCAAAGGAAATCTATTTT-AAAGAATGGGATCCACAACGTCATTCTTT
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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
CCGAGAGTTTACACATCGGGTAAAATCAGTTTCAATGGCTAAATTTAGTGCACAGGAAGTTAGTGCACTTCAAGAAGGAGGAAATCAGgtgtgaatgcttttgtgtgctaaaacttgctctagatatcttaagtcttactcatgttaagttgatagcaccctgcaattaacacatttcttaagttgattttcattatatctaatatttgcag
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGAAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGGAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GGAGGA