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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gttggtaactgaatggattatctgatgctgtattttttagcagaaaatcattgacctgaatatgttcacgtttgttgtgtgctgtcttgtctaattcatgcgaatactcatacaaaacttttgcaataccagATGGGGAGGGCTGCAATGATTGCTGCCGCATTTGGTGGAACTTTACCTCATGGAGTGACTGGTACCAATGAACGGTGCACACTCATAGTCAGTAATCTGA

Basic information

species Zea mays
transcript GRMZM2G070113_T01
intron # 12
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GRMZM2G070113_T01 (Zea mays), 3'ss of exon 12
lower sequence: LOC_Os05g36120.1 (Oryza sativa), 3'ss of exon 12
gttggtaactgaatggattatctgatgctgtattttttagcagaaaatcattgacctgaatatgttcacgtttgttgtgtgctgtcttgtctaattcatgcgaatactcatacaaaacttttgcaataccagATGGGGAGGGCTGCAATGATTGCTGCCGCATTTGGTGGAACTTTACCTCATGGAGTGACTGGTACCAATGAACGGTGCACACTCATAGTCAGTAATCTGA
                              || | |  ||    |  || || || |   | ||   |     | ||  |  |  |      | |||     || |  |||    |  |  | || |  |||||||| || |||||||||||  | || ||||| ||||||||||||||||  || |||||||||||||| ||||| ||||| || |||||||||||| |||
----------------------------gttagtctccagtgatatgtctttcactt---tgtggaaaatgcagatggataataaccctataagttctcataaaaaaacatttgcatttgattcatt--cagATGGGAAGAGCTGCAATGATCACAGCTGCATTCGGTGGAACTTTACCTCCCGGGGTGACTGGTACCAACGAACGTTGCACGCTAATAGTCAGTAATTTGA
















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|67016395|gb|CO445144.1|CO445144
EST:     ACAAGCTGGAGCTTCATATGCACAG                         ATGGGGAGGGCTGCAATGATTGCTGCCGCATTTGGTGGAACTTTACCTCAT
genomic: ACAAGCTGGAGCTTCATATGCACAGgttggtaact ... gcaataccagATGGGGAGGGCTGCAATGATTGCTGCCGCATTTGGTGGAACTTTACCTCAT
EST: gi|31628085|gb|CD526434.1|CD526434
EST:     ACAAGCTGGAGCTTCATATGCACAG                         ATGGGGAGGGCTGCAATGATTGCTGCCGCATTTGG
genomic: ACAAGCTGGAGCTTCATATGCACAGgttggtaact ... gcaataccagATGGGGAGGGCTGCAATGATTGCTGCCGCATTTGG
EST: gi|211376275|gb|FL144037.1|FL144037
EST:     ACAAGCTGGAGCTTCATATGCACAG                         ATGGGGAGGGCTGCAATGATTGCTGCCGCATTTGGTGGAACTTTACCTCAT
genomic: ACAAGCTGGAGCTTCATATGCACAGgttggtaact ... gcaataccagATGGGGAGGGCTGCAATGATTGCTGCCGCATTTGGTGGAACTTTACCTCAT
EST: gi|30031872|gb|CB833723.1|CB833723
EST:     ACAAGCTGGAGCTTCATATGCACAG                         ATGGGGAGGGCTGCAATGATTGCTGCCGCATTTGGTGGAACTTTACCTCAT
genomic: ACAAGCTGGAGCTTCATATGCACAGgttggtaact ... gcaataccagATGGGGAGGGCTGCAATGATTGCTGCCGCATTTGGTGGAACTTTACCTCAT
EST: gi|61118021|gb|DN558982.1|DN558982
EST:     ACAAGCTGGAGCTTCATATGCACAG                         ATGGGGAGGGCTGCAATGATTGCTGCCGCATTTGGTGGAACTTTACCTCAT
genomic: ACAAGCTGGAGCTTCATATGCACAGgttggtaact ... gcaataccagATGGGGAGGGCTGCAATGATTGCTGCCGCATTTGGTGGAACTTTACCTCAT
EST: gi|211376276|gb|FL144038.1|FL144038
EST:     ACAAGCTGGAGCTTCATATGCACAG                         ATGGGGAGGGCTGCAATGATTGCTGCCGCATTTGGTGGAACTTTACCTCAT
genomic: ACAAGCTGGAGCTTCATATGCACAGgttggtaact ... gcaataccagATGGGGAGGGCTGCAATGATTGCTGCCGCATTTGGTGGAACTTTACCTCAT
EST: gi|33093651|gb|CF053645.1|CF053645
EST:     ACAAGCTGGAGCTTCATATGCACAG                         ATGGGGAGGGCTGCAATGATTGCTGCCGCATTTGGTGGAACTTTACCTCAT
genomic: ACAAGCTGGAGCTTCATATGCACAGgttggtaact ... gcaataccagATGGGGAGGGCTGCAATGATTGCTGCCGCATTTGGTGGAACTTTACCTCAT
EST: gi|71436418|gb|DR817468.1|DR817468
EST:     ACAAGCTGGAGCTTCATATGCACAG                         ATGGGGAGGGCTGCAATGATTGCTGCCGCATTTGGTGGAACTTTACCTCAT
genomic: ACAAGCTGGAGCTTCATATGCACAGgttggtaact ... gcaataccagATGGGGAGGGCTGCAATGATTGCTGCCGCATTTGGTGGAACTTTACCTCAT
EST: gi|76011812|gb|DT938982.1|DT938982
EST:     ACAAGCTGGAGCTTCATATGCACAG                         ATGGGGAGGGCTGCAATGATTGCTGCCGCATTTGGTGGAACTTTACCTCAT
genomic: ACAAGCTGGAGCTTCATATGCACAGgttggtaact ... gcaataccagATGGGGAGGGCTGCAATGATTGCTGCCGCATTTGGTGGAACTTTACCTCAT
EST: gi|32915229|gb|CF020041.1|CF020041
EST:     ACAAGCTGGAGCTTCATATGCACAG                         ATGGGGAGGGCTGCAATGATTGCTGCCGCATTTGGTGGAACTTTACCTCAT
genomic: ACAAGCTGGAGCTTCATATGCACAGgttggtaact ... gcaataccagATGGGGAGGGCTGCAATGATTGCTGCCGCATTTGGTGGAACTTTACCTCAT


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

tgtgctgtcttgtctaattcatgcgaatactcatacaaaacttttgcaataccagATGGGGAGGGCTGCAATGATTGCTGCCGCATTTGGTGGAACTTTACCTCATGGAGTGACTGGTACCAATGAACGGTGCACACTCATAGTCAGTAATCTGA
           gtctaat  putative branch site (score: 3)
                                        cttttgc  putative PPT
                                    aaaactttt  TA-rich tract