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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

ATAACCGTGGTGAGTTAAAAATATGTGATTTTGGACTGTCTCGTCAATATGGAAGCCCATTAAAACCTTATACTCAACTGGTTGTGACTTTGTGGTACAGgtaggtcatcggacaacatcagatcctcagcagtgttttggttttcttctaaagttattcagttgagagttctgtttggtcaaatcaaggactcacttttcttgctccttgtggctacag

Basic information

species Zea mays
transcript GRMZM2G179097_T04
intron # 2
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GRMZM2G179097_T04 (Zea mays), 5'ss of exon 2
lower sequence: LOC_Os04g41100.4 (Oryza sativa), 5'ss of exon 2
ATAACCGTGGTGAGTTAAAAATATGTGATTTTGGACTGTCTCGTCAATATGGAAGCCCATTAAAACCTTATACTCAACTGGTTGTGACTTTGTGGTACAGgtaggtcatcggacaacatcagatcc-tcagcagtgttttggttttcttctaaagttattcagttgagagttctgtttggtcaaatcaaggactcacttttcttgctccttgtggctacag
|||||||||||||||| |||||||||||||||||||| ||||||||||||||||||||  |||||||||| |||||| ||||||||||||||||||||||||||||| | || ||||||||||| | ||  ||||||||||| || |   |||  || |||  ||| ||| |||||||  ||||      |||   | ||| ||||||||| |        
ATAACCGTGGTGAGTTGAAAATATGTGATTTTGGACTATCTCGTCAATATGGAAGCCCGCTAAAACCTTACACTCAATTGGTTGTGACTTTGTGGTACAGgtaggtctttggtcaacatcagattcatccccagtgttttggcttgccattaa--tttttccattgtgagctctgttta-tcaatct---gacctgccttt-ttgctccttctcag-----

upper sequence: GRMZM2G179097_T04 (Zea mays), 5'ss of exon 2
lower sequence: GLYMA18G01230.1 (Glycine max), 5'ss of exon 3
ATAACCGTGGTGAGTTAAAAATATGTGATTTTGGACTGTCTCGTCAATATGGAAGCCCATTAAAACCTTATACTCAACTGGTTGTGACTTTGTGGTACAGgtaggtcatcggacaacatcagatcctcagcagtgttttggttttcttctaaagttattcagttgagagttctgtttggtcaaatcaaggactcacttttcttgctccttgtggctacag
||||  | |||||||||||||| |||||||||||| || ||||||||||||| |||||||| ||||| ||||| || ||||| || ||| | ||||||||||  |||||  |      |||||  |    || | ||||   ||| |||  | || | |  ||| |    | || |    |  || |  |  ||| |||| |||    |||||       
ATAATAGGGGTGAGTTAAAAATTTGTGATTTTGGATTGGCTCGTCAATATGGGAGCCCATTGAAACCATATACACACCTGGTGGTTACTCTTTGGTACAGgtgagtcatttgg-----tcaga--catgccatttttttctgtttattc--atgtcact-ggttaatttgtatgatattcctcattatag-ttcaattttattg----ttgtgaa-----

upper sequence: GRMZM2G179097_T04 (Zea mays), 5'ss of exon 2
lower sequence: GLYMA11G37270.1 (Glycine max), 5'ss of exon 1
ATAACCGTGGTGAGTTAAAAATATGTGATTTTGGACTGTCTCGTCAATATGGAAGCCCATTAAAACCTTATACTCAACTGGTTGTGACTTTGTGGTACAGgtaggtcatcggacaacatcagatcctcagcagtgttttggttttcttctaaagttattcagttgagagttctgtttggtcaaatcaaggactcacttttcttgctccttgtggctacag
||||  | || ||||||||||| |||||||||||| || ||||||| ||||| |||||||| ||||| ||||| || || || || ||| | ||||||||||  |||||  |      | |||  |    || | ||||   ||| |||  | || | |  ||| |    | ||| || |       |  |  ||    | ||| |  |||||       
ATAATAGGGGCGAGTTAAAAATTTGTGATTTTGGATTGGCTCGTCAGTATGGGAGCCCATTGAAACCATATACCCACCTTGTGGTTACTCTTTGGTACAGgtgagtcatttgg-----ttaga--catgccatttttttctgtttattc--atgtcact-ggttaa----tttgtatgatattcctcattatacatcaattttgttg-ttgtgaa-----

upper sequence: GRMZM2G179097_T04 (Zea mays), 5'ss of exon 2
lower sequence: AT1G67580.1 (Arabidopsis thaliana), 5'ss of exon 1
ATAACCGTGGTGAGTTAAAAATATGTGATTTTGGACTGTCTCGTCAATATGGAAGCCCATTAAAACCTTATACTCAACTGGTTGTGACTTTGTGGTACAGgtaggtcatcggacaacatcagatcctcagcagtgttttggttttcttctaaagttattcagttgagagttctgtttggtcaaatcaaggactcacttttcttgctccttgtggctacag
| || || |||||||| || |||||||| |||||  || |||| |||||||| |||||  | || ||||||||||| |||||||| ||  | |||||||||||     |  |     | |  || ||      |       ||   |  |     | | || ||  || |  | ||||    |||   ||  |    ||||||| |  || |        
ACAATCGGGGTGAGTTGAAGATATGTGACTTTGGTTTGGCTCGGCAATATGGCAGCCCGCTCAAGCCTTATACTCATCTGGTTGTTACGCTTTGGTACAGgtaaa--gtgcgtttttaccctattcttgtttataaaaaaattaagtggtg----tttacatttacgattgttatttg----aattctgg--tggactttcttgtttttttt--------

upper sequence: GRMZM2G179097_T04 (Zea mays), 5'ss of exon 2
lower sequence: Vv01s0010g02550.t01 (Vitis vinifera), 5'ss of exon 1
ATAACCGTGGTGAGTTAAAAATATGTGATTTTGGACTGTCTCGTCAATATGGAAGCCCATTAAAACCTTATACTCAACTGGTTGTGACTTTGTGGTACAGgtaggtcatcggacaacatcagatcctcagcagtgttttggttttcttctaaagttattcagttgagagttctgtttg-gtcaaatcaaggactcacttttcttgctccttgtggctacag
||||  | |||||||| || || |||||||||||| || |||| ||||| || ||||| || ||||| ||||||||  |||| || ||| | ||||||||||  |     |     ||   ||||          | ||    |     ||  | | | || ||     |    |||  || |||| || |  | |  | | || || | ||         
ATAATAGGGGTGAGTTGAAGATTTGTGATTTTGGATTGGCTCGGCAATACGGGAGCCCTTTGAAACCATATACTCATTTGGTGGTTACTCTATGGTACAGgtgagctg--gacttgcacttgatc----------tcttttcctaggcatatgggtgtacactttcttctctcatttaagtaaaattaatgcttgagatctgtt-cttcatgc--------

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|32863690|gb|CF003372.1|CF003372
EST:     GGAAGCCCATTAAAACCTTATACTCAACTGGTTGTGACTTTGTGGTACAG                         GGCCCCAGAACTGTTGTTAGGA
genomic: GGAAGCCCATTAAAACCTTATACTCAACTGGTTGTGACTTTGTGGTACAGgtaggtcatc ... gtggctacagGGCCCCAGAATTGTTGTTAGGA
EST: gi|31664323|gb|CD573048.1|CD573048
EST:     GGAAGCCCATTAAAACCTTATACTCAACTGGTTGTGACTTTGTGGTACAG                         GGCCCCAGAATTGTTGTTAGGAACAAAGGAGTATTCTACTGCTATTGATAT
genomic: GGAAGCCCATTAAAACCTTATACTCAACTGGTTGTGACTTTGTGGTACAGgtaggtcatc ... gtggctacagGGCCCCAGAATTGTTGTTAGGAACAAAGGAGTATTCTACTGCTATTGATAT
EST: gi|211214733|gb|FL396537.1|FL396537
EST:     GGAAGCCCATTAAAACCTTATATTCAACTGGTTGTGACTTTGTGGTACAG                         GGCCCCAGAATTGT
genomic: GGAAGCCCATTAAAACCTTATACTCAACTGGTTGTGACTTTGTGGTACAGgtaggtcatc ... gtggctacagGGCCCCAGAATTGT
EST: gi|211527625|gb|FL412975.1|FL412975
EST:     GGAAGCCCATTAAAACCTTATACTCAACTGGTTGTGACTTTGTGGTACAG                         GGCCCCAGAATTGTT-T-AGGAACAAAGGAGTATTCTACTGCTATTGATAT
genomic: GGAAGCCCATTAAAACCTTATACTCAACTGGTTGTGACTTTGTGGTACAGgtaggtcatc ... gtggctacagGGCCCCAGAATTGTTGTTAGGAACAAAGGAGTATTCTACTGCTATTGATAT
EST: gi|211055687|gb|FL451729.1|FL451729
EST:     GGAAGCCCATTAAAACCTTATACTCAACTGGTTGTGACTTTGTGGTACAG                         GGCCCCAGAATTGTTGTTAGGAACAAAGGAGTATTCTACTGCTATTGATAT
genomic: GGAAGCCCATTAAAACCTTATACTCAACTGGTTGTGACTTTGTGGTACAGgtaggtcatc ... gtggctacagGGCCCCAGAATTGTTGTTAGGAACAAAGGAGTATTCTACTGCTATTGATAT
EST: gi|6056442|gb|AW090952.1|AW090952
EST:     GGAAGCCCATTAAAACCTTATACTCAACTGGTTGTGACTTTGTGGTACAG                         GGCCCCAGAATTGTTGTTAGGAACAAAGGAGTATTCTACTGCTATTGATAT
genomic: GGAAGCCCATTAAAACCTTATACTCAACTGGTTGTGACTTTGTGGTACAGgtaggtcatc ... gtggctacagGGCCCCAGAATTGTTGTTAGGAACAAAGGAGTATTCTACTGCTATTGATAT
EST: gi|6020498|gb|AW065426.1|AW065426
EST:     GGAAGCCCATTAAAACCTTATACTCAACTGGTTGTGACTTTGTGGTACAG                         GGCCCCAGAATTGTTGTTAGGAACAAAGGAGTATTCTACTGCTATTGATAT
genomic: GGAAGCCCATTAAAACCTTATACTCAACTGGTTGTGACTTTGTGGTACAGgtaggtcatc ... gtggctacagGGCCCCAGAATTGTTGTTAGGAACAAAGGAGTATTCTACTGCTATTGATAT