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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

...cccagcagttccctggcaacaacttatatctcagttctctgtgtgctctccatattgatcttttgttcaattgaatatcttctgttgatgtcaaatgcagCACCTTGATCAGGAAGGTATTAGTTTTTGCTGTCGAACAACTTATGATGATAATGCTATTACAAATGCGGTTGAGATATTTAATACCTCTAG

Basic information

species Zea mays
transcript GRMZM2G109039_T02
intron # 5
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GRMZM2G109039_T01 (Zea mays), 3'ss of exon 6
lower sequence: LOC_Os02g48964.1 (Oryza sativa), 3'ss of exon 6
cccagcagttccctggcaacaacttatatctcagttctctgtgtgctctccatattgatcttttgttcaattgaat--atcttctgttgatgtcaaatgcagCACCTTGATCAGGAAGGTATTAGTTTTTGCTGTCGAACAACTTATGATGATAATGCTATTACAAATGCGGTTGAGATATTTAATACCTCTAG
    | || |     ||   |||| |    | |  |   | ||  || ||    || ||| ||| |  ||||   |  ||  | ||||||||  ||||||||||||||||||  ||||| ||||| |||||||||||||| || |||||||| || |||||||| ||||| ||||||||||| |||||  | ||
-tgggaagatgaagtgccg-aactcagccttaatctgcatatgaactgtctgggtttatcctttttaaaattttcttaattctttgttgatgggaaatgcagCACCTTGATCGAGAAGGAATTAGCTTTTGCTGTCGAACTACATATGATGAAAACGCTATTACTAATGCTGTTGAGATATTCAATACTACCAG

upper sequence: GRMZM2G109039_T01 (Zea mays), 3'ss of exon 6
lower sequence: GLYMA04G12500.1 (Glycine max), 3'ss of exon 6
cccagcagttccctggcaacaacttatatctcagttctctgtgtgctctccatattgatcttttgttcaattgaatatcttctgttgatgtca-aatgcagCACCTTGATCAGGAAGGTATTAGTTTTTGCTGTCGAACAACTTATGATGATAATGCTATTACAAATGCGGTTGAGATATTTAATACCTCTAG
 ||||  | | |          || |||    | |  |||  ||  |     |||  |    |      |||  ||  | |   ||| |     |||||||||||| ||||     ||| |||| ||||||    ||||||||||||||||||||||||| || |||||  ||||||| | | ||    ||||
gccagatgctgctaacttgtccctcatagga-attgttcttggtattagaactatcaacagatatcaagattttatcaccttctttgttactggaatgcagCACCTAGATCGACCTGGTGTTAGCTTTTGCACGAGAACAACTTATGATGATAATGCTATCACCAATGCCATTGAGATTTATGATTGTCCTAG

upper sequence: GRMZM2G109039_T01 (Zea mays), 3'ss of exon 6
lower sequence: Vv00s1206g00020.t01 (Vitis vinifera), 3'ss of exon 2
--cccagcagttccctggcaacaacttatatctcagttctctgtgtgctctccatat-tgatcttttgttcaattgaatatcttctgttgatgtcaaatgcagCACCTTGATCAGGAAGGTATTAGTTTTTGCTGTCGAACAACTTATGATGATAATGCTATTACAAATGCGGTTGAGATATTTAATACCTCTAG
    |   | |||  |   |   | |||  | |   || ||||  |      ||||| | |||  |  |  | | ||| ||||| |     | |  | ||||| |  | ||||     ||  || | ||||| | ||||||||||||||| || |||||||| |||||||| || ||||| | | |||   | ||
tattctaaaattcaatt-tatttatttagttgtgttttttctgaatcaatggcatatatcatcgctcata-agtcgaaaatctttttcctgt-tggagtgcagTATTTAGATCGACCTGGAGTTTGCTTTTGTTCTCGAACAACTTATGACGACAATGCTATCACAAATGCAGTAGAGATTTATGATAGTCCCAG

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|58029875|gb|CX725302.1|CX725302
EST:     AGGACAATTTACTGGTAGCTGGTGGGTTTCAAGGAGAGCTGATCTGTAAA                         CACCTTGATCAGGAAGGTATTAGTTTTTGCTGTCGGACAACTTATGATGAT
genomic: AGGACAATTTACTGGTAGCTGGTGGGTTTCAAGGAGAGCTGATCTGTAAAgtaagttaac ... tcaaatgcagCACCTTGATCAGGAAGGTATTAGTTTTTGCTGTCGAACAACTTATGATGAT
EST: gi|60347828|gb|DN214801.1|DN214801
EST:     AGGACAATTTACTGGTAGCTGGTGGGTTTCAAGGAGAGCTGATCTGTAAA                         CACCTTGATCAGGAAGGTATTAGTTTTTGCTGTCGAACAACTTATGATGAT
genomic: AGGACAATTTACTGGTAGCTGGTGGGTTTCAAGGAGAGCTGATCTGTAAAgtaagttaac ... tcaaatgcagCACCTTGATCAGGAAGGTATTAGTTTTTGCTGTCGAACAACTTATGATGAT
EST: gi|8368895|gb|BE051840.1|BE051840
EST:     AGGACAATTTACTGGTAGCTGGTGGGTTTCAAGGAGAGCTGATCTGTAAA                         CACCTTGATCAGGAAGGTATTAGTTTTTGCTGTCGAACAACTTATGATGAT
genomic: AGGACAATTTACTGGTAGCTGGTGGGTTTCAAGGAGAGCTGATCTGTAAAgtaagttaac ... tcaaatgcagCACCTTGATCAGGAAGGTATTAGTTTTTGCTGTCGAACAACTTATGATGAT
EST: gi|20301188|gb|BQ164131.1|BQ164131
EST:     AGGACAATTTACTGGTAGCTGGTGGGTTTCAAGGAGAGCTGATCTGTAAA                         CACCTTGATCAGGAAGGTATTAGTTTTTTGCTGTCGAACAACTTATCATGA
genomic: AGGACAATTTACTGGTAGCTGGTGGGTTTCAAGGAGAGCTGATCTGTAAAgtaagttaac ... tcaaatgcagCACCTTGATCAGGAAGGTATTAGTTTTT-GCTGTCGAACAACTTATGATGA
EST: gi|453303|gb|T15277.1|T15277
EST:     AGGACAATTTACTGGTAGCTGGTGGGTTTCAAGGAGAGCTGATCTGTAAA                         CACCTTGATCAGGAAGGTATTAGTTTTTGCTGTCGAACAACTTATGATGAT
genomic: AGGACAATTTACTGGTAGCTGGTGGGTTTCAAGGAGAGCTGATCTGTAAAgtaagttaac ... tcaaatgcagCACCTTGATCAGGAAGGTATTAGTTTTTGCTGTCGAACAACTTATGATGAT
EST: gi|67012835|gb|CO441584.1|CO441584
EST:     AGGACAATTTACTGGTAGCTGGTGGGTTTCAAGGAGAGCTGATCTGTAAA                         CACCTTGATCAGGAAGGTATTAGTTTTTGCTGTCGAACAACTTATGATGAT
genomic: AGGACAATTTACTGGTAGCTGGTGGGTTTCAAGGAGAGCTGATCTGTAAAgtaagttaac ... tcaaatgcagCACCTTGATCAGGAAGGTATTAGTTTTTGCTGTCGAACAACTTATGATGAT
EST: gi|20301181|gb|BQ164124.1|BQ164124
EST:     AGGACAATTTACTGGTAGCTGGTGGGTTTCAAGGAGAGCTGATCTGTAAA                         CACCTTGATCAGGAAGGTATTAGTTTTTGCTGTCGAACAACTTATCATGAT
genomic: AGGACAATTTACTGGTAGCTGGTGGGTTTCAAGGAGAGCTGATCTGTAAAgtaagttaac ... tcaaatgcagCACCTTGATCAGGAAGGTATTAGTTTTTGCTGTCGAACAACTTATGATGAT
EST: gi|20300911|gb|BQ163854.1|BQ163854
EST:     AGGACAATTTACTGGTAGCTGGTGGGTTTCAAGGAGAGCTGATCTGTAAA                         CACCTTGATCAGGAAGGTATTAGTTTTTGCTGTCGAACAACTTATCATGAT
genomic: AGGACAATTTACTGGTAGCTGGTGGGTTTCAAGGAGAGCTGATCTGTAAAgtaagttaac ... tcaaatgcagCACCTTGATCAGGAAGGTATTAGTTTTTGCTGTCGAACAACTTATGATGAT
EST: gi|20301275|gb|BQ164218.1|BQ164218
EST:     AGGACAATTTACTGGTAGCTGGTGGGTTTCAAGGAGAGCTGATCTGTAAA                         CACCTTGATCAGGAAGGTATTAGTTTTTGCTGTCGAACAACTTATGATGAT
genomic: AGGACAATTTACTGGTAGCTGGTGGGTTTCAAGGAGAGCTGATCTGTAAAgtaagttaac ... tcaaatgcagCACCTTGATCAGGAAGGTATTAGTTTTTGCTGTCGAACAACTTATGATGAT
EST: gi|20300918|gb|BQ163861.1|BQ163861
EST:     AGGACAATTTACTGGTAGCTGGTGGGTTTCAAGGAGAGCTGATCTGTAAA                         CACCTTGATCAGGAAGGTATTAGTTTTTGCTGTCGAACAACTTATCATGAT
genomic: AGGACAATTTACTGGTAGCTGGTGGGTTTCAAGGAGAGCTGATCTGTAAAgtaagttaac ... tcaaatgcagCACCTTGATCAGGAAGGTATTAGTTTTTGCTGTCGAACAACTTATGATGAT
EST: gi|26456084|gb|CA827667.1|CA827667
EST:     AGGACAATTTACTGGTAGCTGGTGGGTTTCAAGGAGAGCTGATCTGTAAA                         CACCTTGATCAGGAAGGTATTAGTTTTTGCTGTCGAACAACTTATGATGAT
genomic: AGGACAATTTACTGGTAGCTGGTGGGTTTCAAGGAGAGCTGATCTGTAAAgtaagttaac ... tcaaatgcagCACCTTGATCAGGAAGGTATTAGTTTTTGCTGTCGAACAACTTATGATGAT


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

ctctccatattgatcttttgttcaattgaatatcttctgttgatgtcaaatgcagCACCTTGATCAGGAAGGTATTAGTTTTTGCTGTCGAACAACTTATGATGATAATGCTATTACAAATGCGGTTGAGATATTTAATACCTCTAG
                       aattgaatat  TA-rich tract