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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

...ttttgcatacaacatttgttatgctgaacgttttcagaacttggtagtgttctgaatctatattgttccactatctggttgttaactaaggttttatcagTGTGGCTTTGATTGTATTCGGAGCATTCGTTGCTGGAGCTCGAGACTTGTCATTTGATGCTCGTGGGTATGCTATTGTCTTTGTGGCCAACATTACGACA

Basic information

species Zea mays
transcript GRMZM2G133226_T04
intron # 4
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GRMZM2G133226_T04 (Zea mays), 3'ss of exon 4
lower sequence: LOC_Os02g40030.2 (Oryza sativa), 3'ss of exon 4
ttttgcatacaacatttgttatgctgaacgttttcagaacttggtagtgttctgaatctatattgttccactatctggttgtta--actaaggttttatcagTGTGGCTTTGATTGTATTCGGAGCATTCGTTGCTGGAGCTCGAGACTTGTCATTTGATGCTCGTGGGTATGCTATTGTCTTTGTGGCCAACATTACGACA
| | |||       ||| ||| ||| ||  ||| |||||| | ||  |||||||||| |    | ||  ||| |||| || ||   || | || ||| |||| ||||||||||||||||| ||||||||  | ||||||||||||||| |||| |||||||||||||||||||||||||||||||||||||||||||| |||
tgtagcacttgt--tttcttacgctaaaaatttccagaacattgttatgttctgaatatgccatattttactttctgattttttttaccatgggtttgtcagCGTGGCTTTGATTGTATTTGGAGCATTTATCGCTGGAGCTCGAGACCTGTCGTTTGATGCTCGTGGGTATGCTATTGTCTTTGTGGCCAACATTACAACA

upper sequence: GRMZM2G133226_T04 (Zea mays), 3'ss of exon 4
lower sequence: GLYMA06G25900.1 (Glycine max), 3'ss of exon 3
ttttgcatacaacatttgtta-tgctgaacgttttcagaacttggta-gt--gttctgaatctatattgttccactatctggttgttaactaaggttttatcagTGTGGCTTTGATTGTATTCGGAGCATTCGTTGCTGGAGCTCGAGACTTGTCATTTGATGCTCGTGGGTATGCTATTGTCTTTGTGGCCAACAT-TACGACA
  |     ||   | |||||| |  |      |||  || || | || ||  ||| |  | | ||  |||| |  |  ||    |  |   || | || |||||||| |   | ||  ||  ||| || || |||||||||||||| |||||| |||||||||||  |   ||| |  |||| ||||| |  ||||| |   |  
--tgatcaacgttagttgttagtttttgttactttttgagctagatatgttagttttagagcgattatgtttctttgcctaacgg--actaaatgattcatcagTGTTGGGATAATCATAGCCGGTGCTTTTGTTGCTGGAGCTCGTGACTTGGCATTTGATGCTTTTTCCTATTCAGTTGTATTTGTAGAAAACATGTGTAAG-

upper sequence: GRMZM2G133226_T04 (Zea mays), 3'ss of exon 4
lower sequence: Vv11s0016g05710.t01 (Vitis vinifera), 3'ss of exon 4
ttttgcatacaacatttgttatgctgaacgttttcagaacttggtagtgtt-ctgaatctatattgttcc--actatctggttgttaact----aaggttttatcagTGTGGCTTTGATTGTATTCGGAGCATTCGTTGCTGGAGCTCGAGACTTGTCATTTGATGCTCGTGGGTATGCTATTGTCTTTGTGGCCAACATTACGACA
         ||   |   |||| ||     ||||       | | |   || |  | | |||  |||| |  | | |||   ||  || |    ||  ||| | |||||| |   | ||  || | || |||||  ||||||||||||| ||| ||||||||||  |   ||| ||||||||||| |||||||| ||||||   |||
-------ctcagactgatttattcttggaattttatagtgatagcatcattacctattgtatcatgttgctaattttctcaatggaaatttccaaaattttcaccagTGTTGGGATAATCATACTTGGTGCATTTATTGCTGGAGCTCGGGACCTGTCATTTGACTCCTATGGCTATGCTATTGTTTTTGTGGCAAACATTTGTACA

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|71440135|gb|DR821185.1|DR821185
EST:     ATGGAGTATTTCCTGGCAAAGCAGAAGCACACCCCACCTATAATAGGCAG                         TGTGGCTTTGATTGTATTCGGAGCATTCGTTGCTGGAGCTCGAGACTTGTC
genomic: ATGGAGTATTTCCTGGCAAAGCAGAAGCACACCCCACCTATAATAGGCAGgtaaatatat ... gttttatcagTGTGGCTTTGATTGTATTCGGAGCATTCGTTGCTGGAGCTCGAGACTTGTC
EST: gi|148947034|gb|EC892331.2|EC892331
EST:     ATGGAGTATTTCCTGGCAAAGCAGAAGCACACCCCACCTATAATAGGCAG                         TGTGGCTTTGATTGTATTCGGAGCATTCGTTGCTGGAGCTCGAGACTTGTC
genomic: ATGGAGTATTTCCTGGCAAAGCAGAAGCACACCCCACCTATAATAGGCAGgtaaatatat ... gttttatcagTGTGGCTTTGATTGTATTCGGAGCATTCGTTGCTGGAGCTCGAGACTTGTC
EST: gi|91054598|gb|EB165016.1|EB165016
EST:     TGGAGTATTTCTTGCCAAAGCAGAAGCACACCCCCACCTATAATAGGCAG                         TGTGGCTTTGATTGTATTCGGAGCATTCGTTGCTGGAGCTCGAGACTTGTC
genomic: TGGAGTATTTCCTGGCAAAGCAGAAGCACA-CCCCACCTATAATAGGCAGgtaaatatat ... gttttatcagTGTGGCTTTGATTGTATTCGGAGCATTCGTTGCTGGAGCTCGAGACTTGTC
EST: gi|91054599|gb|EB165017.1|EB165017
EST:     ATGGAGTATTTCCTGGCAAAGCAGAAGCACACCCCACCTATAATAGGCAG                         TGTGGCTTTGATTGTATTCGGAGCATTCGTTGCTGGAGCTCGAGACTTGTC
genomic: ATGGAGTATTTCCTGGCAAAGCAGAAGCACACCCCACCTATAATAGGCAGgtaaatatat ... gttttatcagTGTGGCTTTGATTGTATTCGGAGCATTCGTTGCTGGAGCTCGAGACTTGTC


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

agtgttctgaatctatattgttccactatctggttgttaactaaggttttatcagTGTGGCTTTGATTGTATTCGGAGCATTCGTTGCTGGAGCTCGAGACTTGTCATTTGATGCTCGTGGGTATGCTATTGTCTTTGTGGCCAACATTACGACA
                                  tgttaac  putative branch site (score: 2)
                                              ttttatc  putative PPT
         aatctatatt  TA-rich tract