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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

CAGGAAGGCAACCCTATGTGTCCATCCAGATAAACTACAGCAGAGGGGCGCTACGATCAGACAGAAATACATATGTGAGAAGGTTTTTGATCTTCTTAAGgtatgtgctctgtccacattgaatgctctggttatttggaagttggatctctgctcacctgctgccacctgttttgcag

Basic information

species Zea mays
transcript GRMZM2G438895_T03
intron # 8
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GRMZM2G438895_T01 (Zea mays), 5'ss of exon 9
lower sequence: LOC_Os05g50370.1 (Oryza sativa), 5'ss of exon 7
CAGGAAGGCAACCCTATGTGTCCATCCAGATAAACTACAGCAGAGGGGCGCTACGATCAGACAGAAATACATATGTGAGAAGGTTTTTGATCTTCTTAAGgtatgtgctctgtccacattgaatgctctggttatttggaagttggatctct-gctcacctgctgccacctgtt-ttgcag-------------------
||||||||||||||| |||||||||||||||||| ||||||| ||||| ||||| |||||||||||||||||||| |||||||||||||||||||||||||| |||||  |||| |||     || | || |||||||||||||   | |||       |   | |||  | |  |||||                    
CAGGAAGGCAACCCTTTGTGTCCATCCAGATAAATTACAGCAAAGGGGTGCTACAATCAGACAGAAATACATATGCGAGAAGGTTTTTGATCTTCTTAAGgtttgtgcaatgtctacaaaatttgttatgattatttggaagttcattttctcatgtgtccttttccatttctgattgcattagtacaagcatgtttgca

upper sequence: GRMZM2G438895_T01 (Zea mays), 5'ss of exon 9
lower sequence: GLYMA16G25190.1 (Glycine max), 5'ss of exon 9
CAGGAAGGCAACCCTATGTGTCCATCCAGATAAACTACAGCAGAGGGGCGCTACGATCAGACAGAAATACATATGTGAGAAGGTTTTTGATCTTCTTAAGgtatgt---gctctgtccacattgaatgctctggttatttgga--agttggatctctgctcacctgct---gccacctgttttgcag-------------
||||||||| ||||| ||||||||||| || ||  |||||||  | || || |  ||   ||| ||||||||||||||||| || |||||||| || |||||||||   ||   |      |    |  | |  ||||||| |     || ||    |   |  |||    || | |  |  ||| |             
CAGGAAGGCCACCCTTTGTGTCCATCCTGACAAGTTACAGCAACGTGGAGCAAGTATTCAACACAAATACATATGTGAGAAAGTCTTTGATCTACTAAAGgtatgtcttgcatggcatctttcagttaatttatttatttgaaccgtctgcatagggggatatttgccagagcaaaccataatgctgttatctatcaagt

upper sequence: GRMZM2G438895_T01 (Zea mays), 5'ss of exon 9
lower sequence: GLYMA11G07550.1 (Glycine max), 5'ss of exon 12
CAGGAAGGCAACCCTATGTGTCCATCCAGATAAACTACAGCAGAGGGGCGCTACGATCAGACAGAAATACATATGTGAGAAGGTTTTTGATCTTCTTAAGgtatgtgctctgtccacattgaatgctctggttatttggaa--gttggatctctgctcacctgctgccacc-tgttttgcag------------------
||||||||| ||||| ||||| ||||| || ||| |||||||  | || || |  ||   ||| |||||||||||||| |||||||| |||||| | |||||||||  |   | |   |   ||  |    ||| ||||    |||   | | |  |   ||||    |   |||  |  |                   
CAGGAAGGCCACCCTGTGTGTTCATCCTGACAAATTACAGCAACGTGGAGCAAGTATTCAACACAAATACATATGTGAAAAGGTTTTCGATCTTTTGAAGgtatgtaatgcatgctattgctatctttcacttagttggttttgttcattttttattttgctgcaaaaaaaatgtcctatacctagtatggataaggaat

upper sequence: GRMZM2G438895_T01 (Zea mays), 5'ss of exon 9
lower sequence: GLYMA16G25150.1 (Glycine max), 5'ss of exon 7
CAGGAAGGCAACCCTATGTGTCCATCCAGATAAACTACAGCAGAGGGGCGCTACGATCAGACAGAAATACATATGTGAGAAGGTTTTTGATCTTCTTAAGgtatgt---gctctgtccacattgaatgctctggttatttggaagttggatctctgctcacctgct---gccacctgttttgcag---------------
||||||||| ||||| ||||||||||| || ||  | |||||  | || || |  ||   ||| ||||||||||||||||| || |||||||| || |||||||||   ||   |      |    |  | |  ||||||| |   |     |  |   |  |||    || | |  |  ||| |               
CAGGAAGGCCACCCTTTGTGTCCATCCTGACAAGTTGCAGCAACGTGGAGCAAGTATTCAACACAAATACATATGTGAGAAAGTCTTTGATCTCCTAAAGgtatgtcttgcatggcatctttcagttaatttatttatttgaaccgtctgcatagggatatttgccagagcaaaccataatgctgttgcataacttaaaa

upper sequence: GRMZM2G438895_T01 (Zea mays), 5'ss of exon 9
lower sequence: GLYMA02G06160.1 (Glycine max), 5'ss of exon 14
CAGGAAGGCAACCCTATGTGTCCATCCAGATAAACTACAGCAGAGGGGCGCTACGATCAGACAGAAATACATATGTGAGAAGGTTTTTGATCTTCTTAAGgtatgt-------gctctgtccacattgaatgctctgg--ttatttg-gaagttggatctctgctcacctgctgccacc-tgttttgcag----------
 |||||||| ||||| ||||||||||| || ||  |||||||  | || || |  ||   | | |||||||||||||||||||| |||||||| || |||||||||       ||  | |     |||| |  | | |    || ||  |||  |||| | |     |   |    |   ||||    |           
TAGGAAGGCCACCCTTTGTGTCCATCCTGACAAGTTACAGCAACGCGGAGCGAGTATTCAAAACAAATACATATGTGAGAAGGTCTTTGATCTCCTAAAGgtatgtcatgcatgccatctttcagttgatttattttgaaccatctgcaaaggaggatttgtcagagcaaaccataataatgttgcataactaaaatcta

upper sequence: GRMZM2G438895_T01 (Zea mays), 5'ss of exon 9
lower sequence: GLYMA01G37760.1 (Glycine max), 5'ss of exon 7
CAGGAAGGCAACCCTATGTGTCCATCCAGATAAACTACAGCAGAGGGGCGCTACGATCAGACAGAAATACATATGTGAGAAGGTTTTTGATCTTCTTAAGgtatgtgctctgtccacattgaatgctctggttatttggaagttggatctctgctcacctgctgccac----ctgttttgcag------------------
||||||||| ||||| ||||| ||||| || ||| |||||||  | || || |  ||   ||| |||||||||||||| |||||||| |||||| | |||||||||  |   | |  ||||    || |   | | | ||  ||     | |  |    || ||| |       ||  |  |                   
CAGGAAGGCCACCCTGTGTGTTCATCCTGACAAATTACAGCAACGTGGAGCAAGTATTCAACACAAATACATATGTGAAAAGGTTTTCGATCTTTTGAAGgtatgtaatgcttgc-tattgctatctttcactttgttgattttattcattttttattttgttgcaaaaaaatggtcctatacctagtatggataaggaat

upper sequence: GRMZM2G438895_T01 (Zea mays), 5'ss of exon 9
lower sequence: Vv18s0001g12770.t01 (Vitis vinifera), 5'ss of exon 6
CAGGAAGGCAACCCTATGTGTCCATCCAGATAAACTACAGCAGAGGGGCGCTACGATCAGACAGAAATACATATGTGAGAAGGTTTTTGATCTTCTTAAGgtatg-tgctctgtccacat-tgaat--gctctggt-tatttggaagttggatctctgctcacctgctgccacctg---ttttgcag-------------
| ||||||| || || ||||| ||||| |||||  | |||||| | || ||||  ||    ||||| ||||||||||||||||||||||||||| |  ||||||| || | | | |   | || ||  |||   || | |||    | | |    |     | |||  |     |    ||||| ||             
CCGGAAGGCCACTCTTTGTGTGCATCCTGATAAGTTGCAGCAGCGTGGTGCTAGCATTCAGCAGAAGTACATATGTGAGAAGGTTTTTGATCTTTTACAGgtatgctgttgtcttcttttgtgcattagcttaagtatctttatgggctagtgagcactaaaactgaagaggtttcaatttttgtagtaatgcctaaata

upper sequence: GRMZM2G438895_T01 (Zea mays), 5'ss of exon 9
lower sequence: Vv04s0023g02070.t01 (Vitis vinifera), 5'ss of exon 7
CAGGAAGGCAACCCTATGTGTCCATCCAGATAAACTACAGCAGAGGGGCGCTACGATCAGACAGAAATACATATGTGAGAAGGTTTTTGATCTTCTTAAGgtatgtgctctgtc---cacattgaatgctctggttatttggaagttggatctctgct-cacctgctgccacctgttttgcag-----------------
 || || || || || ||||| ||||| || ||| |||| || ||||| || |  ||   |||||| ||||||||||| ||||||||||||||||| ||||| |||   | |||   ||  ||   | |     ||  ||     ||  || |||  | |     ||   | ||||||    |                 
TAGAAAAGCCACTCTTTGTGTTCATCCTGACAAATTACAACAAAGGGGTGCAAGCATTCAACAGAAGTACATATGTGAAAAGGTTTTTGATCTTCTAAAGgtgtgtcaccagtctgccattttctttcccaaaattgatttctgattaaatgtctaatacttacacttaaaactgtttccatgcctataggcctctaaac

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|33942293|gb|CF348893.1|CF348893
EST:     CTACGATCAGACAGAAATACATATGTGAGAAGGTTTTTGATCTTCTTAAG                         GATGCTTGGAACAAATTCACTTCGGAGGAGCGCTAGGGTGGCGGGGGTGCT
genomic: CTACGATCAGACAGAAATACATATGTGAGAAGGTTTTTGATCTTCTTAAGgtatgtgctc ... tgttttgcagGATGCTTGGAACAAATTCACTTCGGAGGAGCGCTAGGGTGGCGGGGGTGCT
EST: gi|4646794|gb|AI621869.1|AI621869
EST:     CTACGATCAGACAGAAATACATATGTGAGAAGGTTTTTGATCTTCTTAAG                         GATGCTTGGAACAAATTCACTTCGGAGGAGCGCTAGGGTGGCGGGGGTGCT
genomic: CTACGATCAGACAGAAATACATATGTGAGAAGGTTTTTGATCTTCTTAAGgtatgtgctc ... tgttttgcagGATGCTTGGAACAAATTCACTTCGGAGGAGCGCTAGGGTGGCGGGGGTGCT
EST: gi|18171613|gb|BM341453.1|BM341453
EST:     CTACGATCAGACAGAAATACATATGTGAGAAGGTTTTTGATCTTCTTAAG                         GATGCTTGGAACAAATTCACTTCGGAGGAGCGCTAGGGTGGCGGGGGTGCT
genomic: CTACGATCAGACAGAAATACATATGTGAGAAGGTTTTTGATCTTCTTAAGgtatgtgctc ... tgttttgcagGATGCTTGGAACAAATTCACTTCGGAGGAGCGCTAGGGTGGCGGGGGTGCT
EST: gi|18174951|gb|BM350339.1|BM350339
EST:     CTACGATCAGACAGAAATACATATGTGAGAAGGTTTTTGATCTTCTTAAG                         GATGCTTGGAACAAATTCACTTCGGAGGAGCGCTAGGGTGGCGGGGGTGCT
genomic: CTACGATCAGACAGAAATACATATGTGAGAAGGTTTTTGATCTTCTTAAGgtatgtgctc ... tgttttgcagGATGCTTGGAACAAATTCACTTCGGAGGAGCGCTAGGGTGGCGGGGGTGCT
EST: gi|113814220|gb|DW931581.1|DW931581
EST:     CTACGATCAGACAGAAATACATATGTGAGAAGGTTTTTGATCTTCTTAAG                         GATGCTTGGAACAAATTCACTTCGGAGGAGCGCTAGGGTGG
genomic: CTACGATCAGACAGAAATACATATGTGAGAAGGTTTTTGATCTTCTTAAGgtatgtgctc ... tgttttgcagGATGCTTGGAACAAATTCACTTCGGAGGAGCGCTAGGGTGG