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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtaaggaatttttaactatcagctagtcaaatactacaggttcacatactcacactaaggcgcacctcttttcatagGTACATGTGTGTCATGGGAATCAACTTTATACAAAAAATG

Basic information

species Zea mays
transcript GRMZM2G104449_T02
intron # 4
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GRMZM2G104449_T02 (Zea mays), 3'ss of exon 4
lower sequence: LOC_Os11g36070.5 (Oryza sativa), 3'ss of exon 4
gtaaggaatttttaactatcagctagtcaaatactacaggttcaca-tactcac----actaaggcgcac--ctcttttcatagGTACATGTGTGTCATGGGAATCAACTTTATACAAAAAATG------------------------------------------------------------
||| | ||| |  |||||  ||  ||| |||| |||  |  ||||| ||| |||    ||| | || |||   | ||| ||||||||||||||| |||||||||||  || | |||||||||||                                                            
gtatgaaatct--aactagtagtgagtaaaatgctatggtctcacaatacacacagtcacttaagcacactgttttttgcatagGTACATGTGTTTCATGGGAATCGTCTCTGTACAAAAAATGGTGAGCACATTCATTAAGGACAACTTCAGATGTTGTTCGCCTAGAATTTTGCATCGTCGG

upper sequence: GRMZM2G104449_T02 (Zea mays), 3'ss of exon 4
lower sequence: LOC_Os11g36070.1 (Oryza sativa), 3'ss of exon 4
gtaaggaatttttaactatcagctagtcaaatactacaggttcaca-tactcaca----ctaaggcgcac--ctcttttcatagGTACATGTGTGTCATGGGAATCAACTTTATACAAAAAATG
||| | ||| |  |||||  ||  ||| |||| |||  |  ||||| ||| ||||    || | || |||   | ||| ||||||||||||||| |||||||||||  || | |||||||||||
gtatgaaatct--aactagtagtgagtaaaatgctatggtctcacaatacacacagtcacttaagcacactgttttttgcatagGTACATGTGTTTCATGGGAATCGTCTCTGTACAAAAAATG
















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|148983373|gb|EE029360.2|EE029360
EST:     ATTTCATACCTTACTTGCTGAAGGCTTTGCAGATGGACCTATTGACGTTT                         GTACATGTGTGTCATGGGAATCAACTTTATACAAAAAATG
genomic: ATTTCATACCTTACTTGCTGAAGGCTTTGCAGATGGACCTATTGACGTTTgtaaggaatt ... cttttcatagGTACATGTGTGTCATGGGAATCAACTTTATACAAAAAATG
EST: gi|149078013|gb|EE166751.2|EE166751
EST:     ATTTCATACCTTACTTGCTGAAGGCTTTGCAGATGGACCTATTGACGTTT                         GTACATGTGTGTCATGGGAATCAACTTTATACAAAAAATG
genomic: ATTTCATACCTTACTTGCTGAAGGCTTTGCAGATGGACCTATTGACGTTTgtaaggaatt ... cttttcatagGTACATGTGTGTCATGGGAATCAACTTTATACAAAAAATG
EST: gi|71429317|gb|DR810367.1|DR810367
EST:     ATTTCATACCTTACTTGCTGAAGGCTTTGCAGATGGACCTATTGACGTTT                         GTACATGTGTGTCATGGGAATCAACTTTATACAAAAAATG
genomic: ATTTCATACCTTACTTGCTGAAGGCTTTGCAGATGGACCTATTGACGTTTgtaaggaatt ... cttttcatagGTACATGTGTGTCATGGGAATCAACTTTATACAAAAAATG
EST: gi|76014645|gb|DT941815.1|DT941815
EST:     ATTTCATACCTTACTTGCTGAAGGCTTTGCAGATGGACCTATTGACGTTT                         GTACATGTGTGTCATGGGAATCAACTTTATACAAAAAATG
genomic: ATTTCATACCTTACTTGCTGAAGGCTTTGCAGATGGACCTATTGACGTTTgtaaggaatt ... cttttcatagGTACATGTGTGTCATGGGAATCAACTTTATACAAAAAATG
EST: gi|211453618|gb|FL253931.1|FL253931
EST:     ATTTCATACCTTACTTGCTGAAGGCTTTGCAGATGGACCTATTGACGTTT                         GTACATGTGTGTCATGGGAATCAACTTTATACAAAAAATG
genomic: ATTTCATACCTTACTTGCTGAAGGCTTTGCAGATGGACCTATTGACGTTTgtaaggaatt ... cttttcatagGTACATGTGTGTCATGGGAATCAACTTTATACAAAAAATG
EST: gi|149084046|gb|EE173442.2|EE173442
EST:     ATTTCATACCTTACTTGCTGAAGGCTTTGCAGATGGACCTATTGACGTTT                         GTACATGTGTGTCATGGGAATCAACTTTATACAAAAAATG
genomic: ATTTCATACCTTACTTGCTGAAGGCTTTGCAGATGGACCTATTGACGTTTgtaaggaatt ... cttttcatagGTACATGTGTGTCATGGGAATCAACTTTATACAAAAAATG
EST: gi|93284538|gb|EB676802.1|EB676802
EST:     ATTTCATACCTTACTTGCTGAAGGCTTTGCAGATGGACCTATTGACGTTT                         GTACATGTGTGTCATGGGAATCAACTTTATACAAAAAATG
genomic: ATTTCATACCTTACTTGCTGAAGGCTTTGCAGATGGACCTATTGACGTTTgtaaggaatt ... cttttcatagGTACATGTGTGTCATGGGAATCAACTTTATACAAAAAATG


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

ctagtcaaatactacaggttcacatactcacactaaggcgcacctcttttcatagGTACATGTGTGTCATGGGAATCAACTTTATACAAAAAATG
                        tactcac  putative branch site (score: 1)
                                        cacctcttttc  putative PPT
      aaatacta  TA-rich tract