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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

TTATTCCCTTCCGTTCTGCAAGCCAGATACCATAGTCGACAGTGCCGAAAATCTTGGGGAGGTACTTCGTGGCGATCGCATTGAGAACTCTCCTTATGTGgttagttccgtatataacataacagattaattgagattttgtcctcgggtatgtgtgtgacatattttttccattctgcttgttatttggagtatag

Basic information

species Zea mays
transcript GRMZM2G006117_T01
intron # 2
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GRMZM2G006117_T02 (Zea mays), 5'ss of exon 2
lower sequence: LOC_Os09g38530.1 (Oryza sativa), 5'ss of exon 2
TTATTCCCTTCCGTTCTGCAAGCCAGATACCATAGTCGACAGTGCCGAAAATCTTGGGGAGGTACTTCGTGGCGATCGCATTGAGAACTCTCCTTATGTGgttagttccgtatataacataacagattaattgagattttgtcctcgggtatgtgtg---tgacatattttttccattctgcttgttatttggagtatag
||| |||||||| |||||||||||||| || || || |||||||| |||||||| || ||||| |||||||| |||||||||||||||||||| |||||||||||| |||  ||   ||||      |  |  || || |||||| |      | ||   | |  | | ||| ||||  | ||| || ||||   || ||
TTACTCCCTTCCTTTCTGCAAGCCAGAAACTATCGTTGACAGTGCTGAAAATCTCGGTGAGGTTCTTCGTGGTGATCGCATTGAGAACTCTCCATATGTGgttagtaccgggtaactcata------ttttgaagtttatgtccttgaagtaatatgccttaatctctgtttgccatcattctttttgtttgagctacag

upper sequence: GRMZM2G006117_T02 (Zea mays), 5'ss of exon 2
lower sequence: GLYMA06G06460.1 (Glycine max), 5'ss of exon 2
TTATTCCCTTCCGTTCTGCAAGCCAGATACCATAGTCGACAGTGCCGAAAATCTTGGGGAGGTACTTCGTGGCGATCGCATTGAGAACTCTCCTTATGTGgttagttccgtatataacataacagattaattgagattttgtcctcgggtatg-tgtgtgacatattttttccattctgcttgttatttggagtatag---------
|||||| ||||| | |||    |||   |  |||   || ||||| |||||||||||||| ||||||||||| || ||||||||||| ||||  |||||||| |||      | |    |  |   | | || |  ||||||    ||  |||    |  |   ||| ||     | |  || | | ||   | | |          
TTATTCACTTCCCTACTGTGCCCCATCAAAAATACAGGATAGTGCAGAAAATCTTGGGGAAGTACTTCGTGGTGACCGCATTGAGAATTCTCTCTATGTGgtcagtcttacttgtttact--cttgtcagtttaatttttgt----ggcaatgacaagaaaggaattcttgatgatatattt-tcagtttaggaacaattaactgct

upper sequence: GRMZM2G006117_T02 (Zea mays), 5'ss of exon 2
lower sequence: GLYMA04G06420.1 (Glycine max), 5'ss of exon 2
TTATTCCCTTCCGTTCTGCAAGCCAGATACCATAGTCGACAGTGCCGAAAATCTTGGGGAGGTACTTCGTGGCGATCGCATTGAGAACTCTCCTTATGTGgttagttccgtatataa---cataacagattaatt---gagattttgtcctcgggtatgtgtgtgacatattttttccattctgcttgttatttggagtatag
|||||| ||||| |  ||    |||   |  |||   || ||||| |||||||||||||| ||||||||||| || || ||||| || ||||  |||||||| |||      | |     | || ||| ||||||   | ||   || |          |    ||     | ||| || | |       |||    |     
TTATTCACTTCCCTATTGTGCCCCATCAAAAATACAGGATAGTGCAGAAAATCTTGGGGAAGTACTTCGTGGTGACCGTATTGAAAATTCTCTCTATGTGgtcagtcttacttgttgtctcttatcagtttaatttttgtgacaatgacaagaaaggaattctagatgatatattttcagtttaggaacaattaactgct---

upper sequence: GRMZM2G006117_T02 (Zea mays), 5'ss of exon 2
lower sequence: GLYMA02G36550.1 (Glycine max), 5'ss of exon 2
TTATTCCCTTCCGTTCTGCAAGCCAGATACCATAGTCGACAGTGCCGAAAATCTTGGGGAGGTACTTCGTGGCGATCGCATTGAGAACTCTCCTTATGTGgttagttccgtatataacataacagattaattgagattttgtcctcgggtatgtgtgtgacatattttttccattctgcttgttatttggagtatag----
 ||||| || || |  |||  |||| |   |||  |||||||||| ||||| || ||||| || || || || ||||||||||| |||||||| ||||||||| |||   |||  ||  |  | ||    ||   | |||   |     ||||| |   |  | |   | | |   |  |     |||  | | |      
CTATTCACTGCCTTATTGCCGGCCAAAACACATTTTCGACAGTGCAGAAAACCTGGGGGAAGTTCTCCGGGGAGATCGCATTGAAAACTCTCCCTATGTGgttggtt---tattaaatctttcggacaggttccaactttccacct---tatgtttagtatgtttcactactaaaatattgaaacttttaaatttttccag

upper sequence: GRMZM2G006117_T02 (Zea mays), 5'ss of exon 2
lower sequence: GLYMA17G34020.1 (Glycine max), 5'ss of exon 2
TTATTCCCTTCCGTTCTGCAAGCCAGATACCATAGTCGACAGTGCCGAAAATCTTGGGGAGGTACTTCGTGGCGATCGCATTGAGAACTCTCCTTATGTGgttagttccgtatataacataacagattaattgagattttgtcctcgggtatgt-gtgtgacatattttttccattctgcttgttatttggagtatag
|||||| ||||| |  ||    ||| |||  ||||| || ||||| ||||||||||| || || |||||||| ||||||||||| || |||| |||||||||  |||   |||  ||  |       |||||    || |||  |    |||||  ||  |   |  || |    ||||     |||   |       
TTATTCTCTTCCTTATTGTCCACCAAATAAAATAGTGGATAGTGCTGAAAATCTTGGAGAAGTGCTTCGTGGTGATCGCATTGAAAATTCTCGTTATGTGgtatgttttatatgaaattt-------taatt---cttgtgttgttaattatgttatgctaatcaacttatttgctctgacatatatgcag-------

upper sequence: GRMZM2G006117_T02 (Zea mays), 5'ss of exon 2
lower sequence: GLYMA14G11780.1 (Glycine max), 5'ss of exon 2
TTATTCCCTTCCGTTCTGCAAGCCAGATACCATAGTCGACAGTGCCGAAAATCTTGGGGAGGTACTTCGTGGCGATCGCATTGAGAACTCTCCTTATGTGgttagttccgtatataacataacagattaattgagattttgtcctcgggtatgtgtgtgacatattttttccattctgcttgttatttggagtatag
|||||| ||||| |  ||    ||| |||  ||||| || ||||| ||||||||||| || || |||||||| ||||||||||| || |||| |||||||||  |||   |||  ||  |       |||||      ||||         | ||  |  ||  || |||  | || |     |||||| ||     
TTATTCTCTTCCTTATTGTCCACCAAATAAAATAGTGGATAGTGCTGAAAATCTTGGAGAAGTGCTTCGTGGTGATCGCATTGAAAATTCTCGTTATGTGgtatgttttatatgaaattt-------taattcttgccttgttaattatgttatggttaccaacttattt--actcagtgacgtatttgcag-----

upper sequence: GRMZM2G006117_T02 (Zea mays), 5'ss of exon 2
lower sequence: AT2G24170.1 (Arabidopsis thaliana), 5'ss of exon 3
TTATTCCCTTCCGTTCTGCAAGCCAGATACCATAGTCGACAGTGCCGAAAATCTTGGGGAGGTACTTCGTGGCGATCGCATTGAGAACTCTCCTTATGTGgttagttccgtatataacataacagattaattgagattttgtcctcgggtatgtgtgtgacatattttttccattctgcttgttatttggagtatag
|||||| ||||| |  ||    |||||    || || || ||||| || ||||| || || || |||||||| ||||| |||||||||||||||| ||||||  ||||    |    | |      ||   |     | |    |  |   |   |||    |  |||||    |||| |||||  || |  |  ||
TTATTCTCTTCCTTATTGTCGTCCAGAACATATTGTTGATAGTGCTGAGAATCTCGGTGAAGTTCTTCGTGGTGATCGAATTGAGAACTCTCCTTTTGTGgtatgttcttgtttcttcttggttctttctctatctgtcttggttaagtggtagttgttgagttgtttttaatgtctgtttgtttctttgt-tgcag

upper sequence: GRMZM2G006117_T02 (Zea mays), 5'ss of exon 2
lower sequence: Vv11s0037g00210.t01 (Vitis vinifera), 5'ss of exon 2
TTATTCCCTTCCGTTCTGCAAGCCAGATACCATAGTCGACAGTGCCGAAAATCTTGGGGAGGTACTTCGTGGCGATCGCATTGAGAACTCTCCTTATGTGgttagttccgtatataacataacagattaattgagattttgtcctcgggtatgtgtgtgacatatt--ttttccattctgcttgttatttggagtatag
 ||||| ||||| |  |||   ||||| |||||||| |||||||| || |||||||| || || ||||| || ||||| ||||| |||||||||||||||||  |||     | | | |||    | | ||     |||    |       ||| ||     ||||  |||   |       ||||  ||| ||     
CTATTCTCTTCCTTATTGCCGTCCAGAAACCATAGTTGACAGTGCAGAGAATCTTGGTGAAGTTCTTCGGGGTGATCGTATTGAAAACTCTCCTTATGTGgtctgttagagttctta-atactttagtgatcctcctttatatccttttcctgtatgcagtttattagtttctaacagaagctgtttgttgcag-----

upper sequence: GRMZM2G006117_T02 (Zea mays), 5'ss of exon 2
lower sequence: Vv04s0008g06640.t01 (Vitis vinifera), 5'ss of exon 2
TTATTCCCTTCCGTTCTGCAAGCCAGATACCATAGTCGACAGTGCCGAAAATCTTGGGGAGGTACTTCGTGGCGATCGCATTGAGAACTCTCCTTATGTGgttagttccg-tatataacataacagattaattgagattttgtcctcgggtatgtgtgtgacatattttttccattctgcttgttatttggagtatag
 ||||| || || |  |||   ||||  |  || || |||| ||| || ||||| ||||| || |||||||| ||||| ||||| ||||| ||||||||||| ||||     || |  | |    ||  | |||||   |    || |  |||||   | |   | | |||    |  |    ||  ||| ||     
CTATTCTCTGCCTTATTGCCGCCCAGGAAAAATTGTGGACAATGCAGAGAATCTCGGGGAAGTGCTTCGTGGTGATCGTATTGAAAACTCCCCTTATGTGgtcagttttaacatcttgcttttttgacaagttgagggctg---cttgtttatgttaataattgactcttttagctgagtggatttgttgcag-----

upper sequence: GRMZM2G006117_T02 (Zea mays), 5'ss of exon 2
lower sequence: PP1S83_105V6.1 (Physcomitrella patens), 5'ss of exon 2
TTATTCCCTTCCGTTCTGCAAGCCAGATACCATAGTCGACAGTGCCGAAAATCTTGGGGAGGTACTTCGTGGCGATCGCATTGAGAACTCTCCTTATGTGgttagttccgta-------tataacataacagattaattgag----------attttgtcctcgggtatgtgtgtgacatattttttc------cattctgcttgttatttggagtatag-----------------------------------------------------------
||| || |||   | |||||||||| | |   | |   |||  || || || ||||| ||||| ||||||||||| ||||| ||||| ||||||||||| || |||| || |        ||   | ||  | || ||  ||           |||  | ||  | |  | |    | | ||| | |       |||| | |  |||  |  ||   |||                                                           
TTACTCTCTTGACTACTGCAAGCCAAAAAAGGTTGAAAACATGGCTGAGAACCTTGGTGAGGTTCTTCGTGGCGACCGCATAGAGAATTCTCCTTATGTCgtaagtttcggagtcctatcatcttaaaaaggttttatatagtataccattagtttactgctttgattagagaacaataaattgtctatccatgcattgttcgcgtttctctgaaattaggtggaggtcaacggatcctctttgtccgcttacaacgtgaatgctgtgttcatttacag

upper sequence: GRMZM2G006117_T02 (Zea mays), 5'ss of exon 2
lower sequence: EFJ35060 (Selaginella moellendorffii), 5'ss of exon 2
TTATTCCCTTCCGTTCTGCAAGCCAGATACCATAGTCGACAGTGCCGAAAATCTTGGGGAGGTACTTCGTGGCGATCGCATTGAGAACTCTCCTTATGTGgttagttccgtatataacataa--cagattaattgagattttgtcctcgggtatgtgtgtgacatattttttccattctgcttgttatttggagtatag
 |||||| |  | || |||||||| |  |   |  || |||| || || ||||| || ||||| ||||| || |||||||| ||||| |||||||||||||| |||| | | | || | | |  ||    |    | |            | |||    ||   |  | |                             
CTATTCCTTGGCATTTTGCAAGCCGGGGAAGGTCCTCAACAGCGCTGAGAATCTGGGCGAGGTTCTTCGAGGAGATCGCATCGAGAATTCTCCTTATGTGgtgagtttcatctctacctttagccaagggagaaaaaaagaaaagaaaaaggatgctaatgctgtggtgtag---------------------------

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|32929714|gb|CF034526.1|CF034526
EST:     ACTTCGTGGCGATCGCATTGAGAACTCTCCTTATGTG                         TTCAAAATGGGAGAGCCCAAGATGTGTCAGATTGTCTGCAGAGCACCGATC
genomic: ACTTCGTGGCGATCGCATTGAGAACTCTCCTTATGTGgttagttccg ... tggagtatagTTCAAAATGGGAGAGCCCAAGATGTGTCAGATTGTCTGCAGAGCACCGATC
EST: gi|149106813|gb|EE188710.2|EE188710
EST:     ATCTTGGGGAGGTACTTCGTGGCGATCGCATTGAGAACTCTCCTTATGTG                         TTCAAAATGGGAGAGCCCAAGATGTGTCAGATTGTCTGCAGAGCACCGATC
genomic: ATCTTGGGGAGGTACTTCGTGGCGATCGCATTGAGAACTCTCCTTATGTGgttagttccg ... tggagtatagTTCAAAATGGGAGAGCCCAAGATGTGTCAGATTGTCTGCAGAGCACCGATC
EST: gi|76018555|gb|DT945725.1|DT945725
EST:     ATCTTGGGGAGGTACTTCGTGGCGATCGCATTGAGAACTCTCCTTATGTG                         TTCAAAATGGGAGAGCCCAAGATGTGTCAGATTGTCTGCAGAGCACCGATC
genomic: ATCTTGGGGAGGTACTTCGTGGCGATCGCATTGAGAACTCTCCTTATGTGgttagttccg ... tggagtatagTTCAAAATGGGAGAGCCCAAGATGTGTCAGATTGTCTGCAGAGCACCGATC