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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

CTGAACAGCTACAGCAAGCTAACTGGTCTAGTGGTCAGCAGGAAGAGATGTGACTCGATTGGCATCCCAGCACTCAGTTCGTCGTTAAAACTCTCTCTCGgtagaatcaaacagagctttgtattgtgagttatttgcatattttgtccattattttgttgtctacttgtctcgtcttatttttgtgttgaaaacattgtatgtccaattcatgcgtgcttcattattaaactgatcattttgaactgatcacag

Basic information

species Zea mays
transcript GRMZM2G176506_T07
intron # 2
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GRMZM2G176506_T07 (Zea mays), 5'ss of exon 2
lower sequence: LOC_Os01g09120.2 (Oryza sativa), 5'ss of exon 2
CTGAACAGCTACAGCAAGCTAACTGGTCTAGTGGTCAGCAGGAAGAGATGTGACTCGATTGGCATCCCAGCACTCAGTTCGTCGTTAAAACTCTCTCTCGgtagaatcaaacagagctttgtattgtgagttatttgcatattttgtccattattttgttgtctacttgtctcgtcttat-ttttgtgttgaaaacattgtatgtccaattcatgcgtgcttcattattaaactg----atcattttgaactgat-cacag
                         ||||||||||| || ||||||||||||| ||  |||||||||||||||||||||| || ||||| || ||||| |||||||||||||| ||||||||||||||||||||||||||| | |||   || | |||||||     ||| | | | ||| | | ||||| |||| |   ||| | || ||||| |   ||| |||| |  |  |     | |||||||| |||| |||||
-------------------------GTCTAGTGGTCTGCGGGAAGAGATGTGATTCTGTTGGCATCCCAGCACTCAGTTCTTCATTAAATCTTTCTCTTGGTAGAATCAAACAAAGCTTTGTATTgtgagttatttgcataatctgt---ttgtattgttgt-----tgttttgacgtatatctcgtgttcaaaataa-atatatgcatttcattccctctttattaattgagagcagttttattttgaaatgattcacag

upper sequence: GRMZM2G176506_T07 (Zea mays), 5'ss of exon 2
lower sequence: GLYMA02G02600.5 (Glycine max), 5'ss of exon 2
CTGAACAGCTACAGCAAGCTAACTGGTCTAGTGGTCAGCAGGAAGAGATGTGACTCGATTGGCATCCCAGCACTCAGTTCGTCGTTAAAACTCTCTCTCGgtagaatcaaacagagctttgtattgtgagttatttgcatattttgtccattattttgttgtctacttgtctc--gtcttatttttgtgttgaaaacattgtatgtccaattcatgcgtgcttcattattaaactgatcattttgaactgatcacag
                         |   | ||||  | || ||||| |    |     || | |        | ||  | || || |   | ||||| |||||||||||||| ||||||||||||||||||||| | |     |||| |   ||||||| |    ||  | |  |  ||||  || | ||| | ||  |  || |    ||  |  |   || | | |  |                         
-------------------------GGAGATTGGTGTGTAGAAAGAGGTCCAGCATTCCTGACGTGGGTCTTTTAAGCACATCCTTGATTATTTCTCTTGGTAGAATCAAACAAAGCTTTGTATTgtgagttattggaa----atgtcta--gttttgttattactttaccgcaagctttatgctt-ttttgcagacccttaatttgttgtttgtatgattttgagtttccatgcag--------------------

upper sequence: GRMZM2G176506_T07 (Zea mays), 5'ss of exon 2
lower sequence: GLYMA16G10260.1 (Glycine max), 5'ss of exon 4
CTGAACAGCTACAGCAAGCTAACTGGTCTAGTGGTCAGCAGGAAGAGATGTGACTCGATTGGCATCCCAGCACTCAGTTCGTCGTTAAAACTCTCTCTCGgtagaatcaaacagagctttgtattgtgagttatttgcatattttgtccattattttgttgtctacttgtctcgtcttatttttgtgttgaaaacattgtatgtccaattcatgcgtgcttcattattaaactgatcattttgaactgatcacag
                             | ||||  | || ||||| |    |     || | |        | ||  | || || |   | ||||| |||||||||||||| ||||||||||||||||||||| | |   | |     || | || ||   |    | |  |  ||||  || | ||| | ||  |  || |    ||  |  |   || | | |  |  |                      
--------------------------GAGATTGGTGTGTAGAAAGAGGTCCAGCATTCCTGACGTGGGTCTTTTAAGCACATCCTTGATTATTTCTCTTGGTAGAATCAAACAAAGCTTTGTATTgtgagttattggaaatgtcta---gttttgttattacttgaccg-caagctttatgctt-ttttgtagacccttaatttgttgtttgtatgattttgagtttccatgtag--------------------

upper sequence: GRMZM2G176506_T07 (Zea mays), 5'ss of exon 2
lower sequence: GLYMA01G04920.1 (Glycine max), 5'ss of exon 2
CTGAACAGCTACAGCAAGCTAACTGGTCTAGTGGTCAGCAGGAAGAGATGTGACTCGATTGGCATCCCAGCACTCAGTTCGTCGTTAAAACTCTCTCTCGgtagaatcaaacagagctttgtattgtgagttatttgca-tattttgtccattattttgttgtctacttgtct-cgtcttatttttgtgttgaaaacattgtatgtccaattcatgcgtgcttcattattaaactgatcattttgaactgatcacag
                         |   | ||||  |    ||||||||   |     ||   |        | ||  | || || |   | ||||| |||||||||||||| |||||||||||||||||| || | | | | | ||    |  ||  || || ||  |  |  |  ||          | ||    |||  |||   |||     | | ||| ||                              
-------------------------GCAGATTGGTGTGTCAAAAGAGATGCAGCATTCCTGATGTGGGTCTTTTAAGCACATCCTTGATTATTTCTCTTGGTAGAATCAAACAAAGCTTTGTATTgtgagttgttggaaatgtctagttttgttattacttttccacaagcttatgctttccgcagacccttaatttgttgcttgtatgattt---tgagtttccttgcag--------------------------

upper sequence: GRMZM2G176506_T07 (Zea mays), 5'ss of exon 2
lower sequence: AT2G02710.3 (Arabidopsis thaliana), 5'ss of exon 2
CTGAACAGCTACAGCAAGCTAACTGGTCTAGTGGTCAGCAGGAAGAGATGTGACTCGATTGGCATCCCAGCACTCAGTTCGTCGTTAAAACTCTCTCTCGgtagaatcaaacagagctttgtattgtgagttatttgcatattttgtccattattttgttgtctacttgtctcgtcttatttttgtgttgaaaacattgtatgtccaattcatgcgtgcttcattattaaactgatcattttgaactgatcacag
                         ||  | | ||| || | ||| | |    || |   ||  |       || || |||||||||    | |||||||||||||||||||| || || |||||||||||   ||   | |||  |   ||||   |||  |    ||   |     |||||  | ||||   ||||||      || |  |||                                        
-------------------------GTAGATTAGTCTGCGGAAAGCGGTACTGCTTGCGAGGAGTAGATTGTCTAAGCTCGTCGTTAGTTATTTCTCTCGGTAGAATCAAACAAAGTTTCGTATTgtgagtacattatttttttattgtgttatggagtta-cagtctgctacaatagattttgatattga---cattgttctcgtaactt-tgcag--------------------------------------

upper sequence: GRMZM2G176506_T07 (Zea mays), 5'ss of exon 2
lower sequence: Vv01s0026g01590.t01 (Vitis vinifera), 5'ss of exon 3
CTGAACAGCTACAGCAAGCTAACTGGTCTAGTGGTCAGCAGGAAGAGATGTGACTCGATTGGCATCCCAGCACTCAGTTCGTCGTTAAAACTCTCTCTCGgtagaatcaaacagagctttgtattgtgagttatttgcatattttgtccattattttgttgtctacttgtctcgtcttatttttgtgttgaaaacattgtatgtc--caattcatgcgtgcttcattattaaactgatcattttgaactgatcacag
                         |   | ||||| ||   ||||||||   ||    ||| ||       ||  || | || ||||   | ||||| |||||||||||||| |||||||||||||||||| ||| ||  |  |       ||||  ||  | |    | ||    || | |    ||||| |   |  |||||  |   | |||| | |  ||  ||  |  || |  | ||| |          
-------------------------GCAAATTGGTCTGCGAAAAGAGATGCACCTTATCTGGAATTGGCCTCCTTGGTGCTTCCTTAATTATATCTCTTGGTAGAATCAAACAAAGCTTTGTATTgtgagtt-tttacaattccta-----aatttcttttaccatagatgtcaatatagtgt----ttgaagatggttaatgtcttcgccttatgcatcccacaacatatatgtgttgctcttgcag---------

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|78080958|gb|DV509370.1|DV509370
EST:     TGACTCGATTGGCATCCCAGCACTCAGTTCGTCGTTAAAACTCTCTCTCG                         GACTGACTCCCGCTTGCCTAACATGCCAATTATTTATGCTAGTGATGCTTT
genomic: TGACTCGATTGGCATCCCAGCACTCAGTTCGTCGTTAAAACTCTCTCTCGgtagaatcaa ... ctgatcacagGACTGACTCCCGCTTGCCTAACATGCCAATTATTTATGCTAGTGATGCTTT