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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

GCTTACATCTCACAATTGTTATTCTCAGCAACCTAAACCACAACCTATTAGATATAGGGGAGTAGAACATCTACTGGATATGCTTGTGCATTATAACCAGgtcaaattctctttgtttattcattaagtgcattattacattttaaaacatgacacttatttatgctactttctattttgatgcttctttccag

Basic information

species Zea mays
transcript GRMZM2G014805_T02
intron # 5
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GRMZM2G014805_T01 (Zea mays), 5'ss of exon 23
lower sequence: LOC_Os12g30540.1 (Oryza sativa), 5'ss of exon 23
GCTTACATCTCACAATTGTTATTCTCAGCAACCTAAACCACAACCTATTAGATATAGGGGAGTAGAACATCTACTGGATATGCTTGTGCATTATAACCAGgtcaaattctctttgtttattcattaagtgcattattacattttaaaacatgacacttatttatgctactttctattttgatgcttctttccag
 |||||||||||||| |||||||| ||||||||||||||||| ||||| |||||| | || ||||| || ||| ||||||||||||| ||||| || |||||  | |  ||||| |||      ||||  |   || ||  ||      ||     ||||||   |  ||  || ||                 
CCTTACATCTCACAACTGTTATTCCCAGCAACCTAAACCACAGCCTATCAGATATCGTGGTGTAGAGCACCTATTGGATATGCTTGTTCATTACAATCAGgtatattcttctttatttgcgacataagcactacatgaccattgggcttatatt--ttattttcacgcctggcttttgcag-------------

upper sequence: GRMZM2G014805_T01 (Zea mays), 5'ss of exon 23
lower sequence: AT5G06600.3 (Arabidopsis thaliana), 5'ss of exon 23
GCTTACATCTCACAATTGTTATTCTCAGCAACCTAAACCACAACCTATTAGATATAGGGGAGTAGAACATCTACTGGATATGCTTGTGCATTATAACCAGgtcaaattctctttgtttattcatta-agtgcattattacattttaaaacatgacacttatttatg-ctactttctattttgatgcttctttccag
|||||||||||||||||| ||||| |||||||| || || || ||||| |  ||  | |||||||| ||| |    |||||| | || ||||| || |||||  ||||  | |      ||||  | | |  | |  |   | ||   | || |   | ||  ||| || |||  |  |||  |  || ||| |||
GCTTACATCTCACAATTGCTATTCCCAGCAACCCAAGCCTCAGCCTATCAAGTACCGTGGAGTAGACCATTTGTCAGATATGTTAGTTCATTACAATCAGgt--aattgacgtgaa--gttcagcatactttacttatttgtcttgctatataaatataatacatgtctgcttattggtttt-ttttttttttcag

upper sequence: GRMZM2G014805_T01 (Zea mays), 5'ss of exon 23
lower sequence: AT3G11910.1 (Arabidopsis thaliana), 5'ss of exon 23
GCTTACATCTCACAATTGTTATTCTCAGCAACCTAAACCACAACCTATTAGATATAGGGGAGTAGAACATCTACTGGATATGCTTGTGCATTATAACCAGgtcaaattctctttgtttattca--ttaagtgcattattacattttaaaacatgacacttatttatgctactttctat-tttgatgcttctttccag
|||||||||||||||||| || ||||||||||| || || || || || | |||  | |||||||| |||||    |||||| | || || ||||| ||||| |    |  |   || ||| |  |||  |    | ||   |||   |   | |  |  | || |   ||| |  || |||  |   | ||| |||
GCTTACATCTCACAATTGCTACTCTCAGCAACCCAAGCCTCAGCCAATCAAATACCGTGGAGTAGATCATCTTTCAGATATGTTAGTTCACTATAATCAGgtgattgacattggtttgattgaacttacattttcttttttttttccgattctaatgcagaattgt-taactatgaatgtttcttatatttttgcag

upper sequence: GRMZM2G014805_T01 (Zea mays), 5'ss of exon 23
lower sequence: Vv08s0032g00600.t01 (Vitis vinifera), 5'ss of exon 23
GCTTACATCTCACAATTGTTATTCTCAGCAACCTAAACCACAACCTATTAGATATAGGGGAGTAGAACATCTACTGGATATGCTTGTGCATTATAACCAGgtcaaattctctttgtttattcattaagtgcattattacattttaaaacatgacacttatttatgctactttct-attttgatgcttctttccag-------------------------------------------------
 |||||||||||||| || ||||| ||||||||||| || ||||| |||| |||| | || ||||| ||| |    || |||||||||||||| || |||||     | ||     |  |     || |    |  |  || | |     ||    |||||| |  || ||| | || |  ||   | |||  |                                                  
ACTTACATCTCACAACTGCTATTCCCAGCAACCTAAGCCCCAACCAATTAAATATCGAGGTGTAGAGCATTTGTCAGACATGCTTGTGCATTACAATCAGgttg--ctttcacaaatactgagacaaatttgatgcttgatatgatcgtttgttttttattttttttatttttttatatatatatatttttatataacttttagtaacagaaacttcttccttcttctttggcctttggaacag

upper sequence: GRMZM2G014805_T01 (Zea mays), 5'ss of exon 23
lower sequence: PP1S42_181V6.1 (Physcomitrella patens), 5'ss of exon 23
GCTTACATCTCACAATTGTTATTCTCAGCAACCTAAACCACAACCTATTAGATATAGGGGAGTAGAACATCTACTGGATATGCTTGTGCATTATAACCAGgt-caaattctctttgtttattcattaagtgcattattacattttaaaacat---gacacttatttatgctactttctattt--tgatgcttctttccag--------------------
||| ||||| |||||||| || ||||||||||| |||||||||||||| |  ||| | || || || |  ||    |||||||| || |||||||| ||||| ||||   | | ||  |||    ||| ||    | |   | ||  ||            | || ||  |   ||  ||||    |  | || |    |                    
GCTAACATCACACAATTGCTACTCTCAGCAACCAAAACCACAACCTATCAAGTATCGTGGCGTTGAGCGGCTCAGTGATATGCTCGTACATTATAATCAGgtacaaaggatgtatgcatatgt-ctaaatgatcaaatgtctcttgcaatgctggagtgtctcttaatattgtattaaatttgacaaaacatcctattggattccgcgtggtgtttgcag

upper sequence: GRMZM2G014805_T01 (Zea mays), 5'ss of exon 23
lower sequence: PP1S123_138V6.1 (Physcomitrella patens), 5'ss of exon 23
GCTTACATCTCACAATTGTTATTCTCAGCAACCTAAACCACAACCTATTAGATATAGGGGAGTAGAACATCTACTGGATATGCTTGTGCATTATAACCAGgtcaaat--------tctctttgtttattcattaagtgcattattacattttaaaacatgacacttatttatgctactttctattttgatgcttctttccag
||||||||| ||||||||||| || |||||||| ||||||||||| || |  ||| |||| || |||   |||   |||||||| || || ||||| |||||  ||         ||    |||| |||| || | ||   |      ||||     |  | |   ||   |      |  | ||||  || || |  ||||
GCTTACATCACACAATTGTTACTCGCAGCAACCAAAACCACAACCCATCAAGTATCGGGGGGTTGAAAGACTAAGTGATATGCTCGTACACTATAATCAGgtacaacgaaattgatcatactgttaattcgtttattgtggtgaatatttttgttttacaaaatgaatgattttggtctgattttttcgtggtt-tgcccag

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|32933255|gb|CF038067.1|CF038067
EST:     GATATAGGGGAGTAGAACATCTACTGGATATGCTTGTGCATTATAACCAG                         ACTTCTGATATCTTGTATTATGAGGTTCTGGACATTCCACTGCCAGAATTG
genomic: GATATAGGGGAGTAGAACATCTACTGGATATGCTTGTGCATTATAACCAGgtcaaattct ... ttctttccagACTTCTGATATCTTGTATTATGAGGTTCTGGACATTCCACTGCCAGAATTG
EST: gi|32934023|gb|CF038835.1|CF038835
EST:     GATATAGGGGAGTAGAACATCTACTGGATATGCTTGTGCATTATAACCAG                         ACTTCTGATATCTTGTATTATGAGGTTCTGGACATTCCACTGCCAGAATTG
genomic: GATATAGGGGAGTAGAACATCTACTGGATATGCTTGTGCATTATAACCAGgtcaaattct ... ttctttccagACTTCTGATATCTTGTATTATGAGGTTCTGGACATTCCACTGCCAGAATTG
EST: gi|60354119|gb|DN221092.1|DN221092
EST:     GATATAGGGGAGTAGAACATCTACTGGATATGCTTGTGCATTATAACCAG                         ACTTCTGATATCTTGTATTATGAGGTTCTGGACATTCCACTGCCAGAATTG
genomic: GATATAGGGGAGTAGAACATCTACTGGATATGCTTGTGCATTATAACCAGgtcaaattct ... ttctttccagACTTCTGATATCTTGTATTATGAGGTTCTGGACATTCCACTGCCAGAATTG
EST: gi|76019060|gb|DT946230.1|DT946230
EST:     GATATAGGGGAGTAGAACATCTACTGGATATGCTTGTGCATTATAACCAG                         ACTTCTGATATCTTGTATTATGAGGTTCTGGACATTCCACTGCCAGAATTG
genomic: GATATAGGGGAGTAGAACATCTACTGGATATGCTTGTGCATTATAACCAGgtcaaattct ... ttctttccagACTTCTGATATCTTGTATTATGAGGTTCTGGACATTCCACTGCCAGAATTG
EST: gi|13178629|gb|BG349887.1|BG349887
EST:     GATATAGGGGAGTAGAACATCTACTGGATATGCTTGTGCATTATAACCAG                         ACTTCTGATATCTTGTATTATGAGGTTTTGGTCTTTCCACTGCCAGAATTG
genomic: GATATAGGGGAGTAGAACATCTACTGGATATGCTTGTGCATTATAACCAGgtcaaattct ... ttctttccagACTTCTGATATCTTGTATTATGAGGTTCTGGACATTCCACTGCCAGAATTG