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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtaatttgctttccagaactgggggttaactgttatatcagcactactgttgtggatttgttacattgcaagcaagcagtaatatgatgtttggtataacacagATTCAAGAGCTTGTGGAAGCAATAGTGTTACCAATGACACACAAGGACCGATTTCAAAAATTGGGCATTCGTCCCCCCAAAGGGGTTCTTTTGTATGGAC

Basic information

species Zea mays
transcript GRMZM2G027282_T01
intron # 4
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GRMZM2G027282_T01 (Zea mays), 3'ss of exon 4
lower sequence: LOC_Os02g56000.2 (Oryza sativa), 3'ss of exon 4
-----------------------------------------------------------------------------gtaatttgctttccagaactgggggttaactgttatatcagcactactgttgtggatttgttacat-tgcaagcaagcagtaatatgatgtttggtataacacagATTCAAGAGCTTGTGGAAGCAATAGTGTTACCAATGACACACAAGGACCGATTTCAAAAATTGGGCATTCGTCCCCCCAAAGGGGTTCTTTTGTATGGAC
                                                                             |||| ||  |||||| | ||      ||| ||||  |||||   | |||||      ||||||  |   |    | |   || | | || ||  || |||  ||||||||||||||||| ||||||||||| || || ||||| ||||||||||| ||||| || ||||| ||||| ||||| ||||| ||||||||||| ||||
gtatttatttactttaaagatctaatgatgaaaacattagttaggatggtcaccattctgttgttatgtaagtagcagtaacttcatttccatatctca----taagtgtt-catcagt--tgctgtttgttcattgttatctgctctcttatgttctacttttatatt--gtctaatgcagATTCAAGAGCTTGTTGAAGCAATAGTATTGCCCATGACTCACAAGGACCGGTTTCAGAAGTTGGGAATTCGCCCCCCGAAAGGTGTTCTTTTGTACGGAC
















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|62550265|gb|DN830685.1|DN830685
EST:     ATGAGAAACCTACTGAGGATTACAATGACATCGGCGGACTTGAGAAACAG                         ATTCAAGAGCTTGTGGAAGCAATAGTGTTACCAATGACACACAAGGACCGA
genomic: ATGAGAAACCTACTGAGGATTACAATGACATTGGCGGACTTGAGAAACAGgtaatttgct ... tataacacagATTCAAGAGCTTGTGGAAGCAATAGTGTTACCAATGACACACAAGGACCGA
EST: gi|148969904|gb|EE020805.2|EE020805
EST:     ATGAGAAACCTACTGAGGATTACAATGACATTGGCGGACTTGAGAAACAG                         ATTCAAGAGCTTGTGGAAGCAATAGTGTTACCAATGACACACAAGGACCGA
genomic: ATGAGAAACCTACTGAGGATTACAATGACATTGGCGGACTTGAGAAACAGgtaatttgct ... tataacacagATTCAAGAGCTTGTGGAAGCAATAGTGTTACCAATGACACACAAGGACCGA
EST: gi|31355202|gb|CD439559.1|CD439559
EST:     ATGAGAAACCTACTGAGGATTACAATGACATTGGCGGACTTGAGAAACAG                         ATTCAAGAGCTTGTGGAAGCAATAGTGTTACCAATGACACACAAGGACCGA
genomic: ATGAGAAACCTACTGAGGATTACAATGACATTGGCGGACTTGAGAAACAGgtaatttgct ... tataacacagATTCAAGAGCTTGTGGAAGCAATAGTGTTACCAATGACACACAAGGACCGA
EST: gi|60397914|gb|DN230730.1|DN230730
EST:     ATGAGAAACCTACTGAGGATTACAATGACATTGGCGGACTTGAGAAACAG                         ATTCAAGAGCTTGTGGAAGCAATAGTGTTACCAATGACACACAAGGACCGA
genomic: ATGAGAAACCTACTGAGGATTACAATGACATTGGCGGACTTGAGAAACAGgtaatttgct ... tataacacagATTCAAGAGCTTGTGGAAGCAATAGTGTTACCAATGACACACAAGGACCGA
EST: gi|6527001|gb|AW216226.1|AW216226
EST:     ATGAGAAACCTACTGAGGATTACAATGACATCGGCGGACTTGAGAAACAG                         ATTCAAGAGCTTGTGGAAGCAATAGTGTTACCAATGACACACAAGGACCGA
genomic: ATGAGAAACCTACTGAGGATTACAATGACATTGGCGGACTTGAGAAACAGgtaatttgct ... tataacacagATTCAAGAGCTTGTGGAAGCAATAGTGTTACCAATGACACACAAGGACCGA
EST: gi|61118361|gb|DN559322.1|DN559322
EST:     ATGAGAAACCTACTGAGGATTACAATGACATCGGCGGACTTGAGAAACAG                         ATTCAAGAGCTTGTGGAAGCAATAGTGTTACCAATGACACACAAGGACCGA
genomic: ATGAGAAACCTACTGAGGATTACAATGACATTGGCGGACTTGAGAAACAGgtaatttgct ... tataacacagATTCAAGAGCTTGTGGAAGCAATAGTGTTACCAATGACACACAAGGACCGA
EST: gi|148967389|gb|EE018612.2|EE018612
EST:     ATGAGAAACCTACTGAGGATTACAATGACATTGGCGGACTTGAGAAACAG                         ATTCAAGAGCTTGTGGAAGCAATAGTGTTACCAATGACACACAAGGACCGA
genomic: ATGAGAAACCTACTGAGGATTACAATGACATTGGCGGACTTGAGAAACAGgtaatttgct ... tataacacagATTCAAGAGCTTGTGGAAGCAATAGTGTTACCAATGACACACAAGGACCGA
EST: gi|60401214|gb|DN234021.1|DN234021
EST:     ATGAGAAACCTACTGAGGATTACAATGACATTGGCGGACTTGAGAAACAG                         ATTCAAGAGCTTGTGGAAGCAATAGTGTTACCAATGACACACAAGGACCGA
genomic: ATGAGAAACCTACTGAGGATTACAATGACATTGGCGGACTTGAGAAACAGgtaatttgct ... tataacacagATTCAAGAGCTTGTGGAAGCAATAGTGTTACCAATGACACACAAGGACCGA
EST: gi|211379906|gb|FL296455.1|FL296455
EST:     ATGAGAAACCTACTGAGGATTACAATGACATTGGCGGACTTGAGAAACAG                         ATTCAAGAGCTTGTGGAAGCAATAGTGTTACCAATGACACACAAGGACCGA
genomic: ATGAGAAACCTACTGAGGATTACAATGACATTGGCGGACTTGAGAAACAGgtaatttgct ... tataacacagATTCAAGAGCTTGTGGAAGCAATAGTGTTACCAATGACACACAAGGACCGA
EST: gi|149100602|gb|EE186689.2|EE186689
EST:     ATGAGAAACCTACTGAGGATTACAATGACATTGGCGGACTTGAGAAACAG                         ATTCAAGAGCTTGTGGAAGCAATAGTGTTACCAATGACACACAAGGACCGA
genomic: ATGAGAAACCTACTGAGGATTACAATGACATTGGCGGACTTGAGAAACAGgtaatttgct ... tataacacagATTCAAGAGCTTGTGGAAGCAATAGTGTTACCAATGACACACAAGGACCGA
EST: gi|166596283|gb|EG233780.1|EG233780
EST:     ATGAGAAACCTACTGAGGATTACAATGACATTGGCGGACTTGAGAAACAG                         ATTCAAGAGCTTGTGGAAGCAATAGTGTTAC
genomic: ATGAGAAACCTACTGAGGATTACAATGACATTGGCGGACTTGAGAAACAGgtaatttgct ... tataacacagATTCAAGAGCTTGTGGAAGCAATAGTGTTAC
EST: gi|20208194|gb|BQ134283.1|BQ134283
EST:     ATGAGAAACCTACTGAGGATTACAATGACATCGGCGGACTTGAGAAACAG                         ATTCAAGAGCTTGTGGAAGCAATAGTGTTACCAATGACACACAAGGACCG
genomic: ATGAGAAACCTACTGAGGATTACAATGACATTGGCGGACTTGAGAAACAGgtaatttgct ... tataacacagATTCAAGAGCTTGTGGAAGCAATAGTGTTACCAATGACACACAAGGACCG
EST: gi|71448750|gb|DR829800.1|DR829800
EST:     ATGAGAAACCTACTGAGGATTACAATGACATTGGCGGACTTGAGAAACAG                         ATTCAAGAGCTTGTGGAAGCAATAGTGTTACCAATGACACACAAGGACCGA
genomic: ATGAGAAACCTACTGAGGATTACAATGACATTGGCGGACTTGAGAAACAGgtaatttgct ... tataacacagATTCAAGAGCTTGTGGAAGCAATAGTGTTACCAATGACACACAAGGACCGA
EST: gi|74241540|gb|DT649454.1|DT649454
EST:     ATGAGAAACCTACTGAGGATTACAATGACATTGGCGGACTTGAGAAACAG                         ATTCAAGAGCTTGTGGAAGCAATAGTGTTACCAATGACACACAAGGACCGA
genomic: ATGAGAAACCTACTGAGGATTACAATGACATTGGCGGACTTGAGAAACAGgtaatttgct ... tataacacagATTCAAGAGCTTGTGGAAGCAATAGTGTTACCAATGACACACAAGGACCGA
EST: gi|67041966|gb|CO468221.1|CO468221
EST:     ATGAGAAACCTACTGAGGATTACAATGACATTGGCGGACTTGAGAAACAG                         ATTCAAGAGCTTGTGGAAGCAATAGTGTTACCAATGACACACAAGGACCGA
genomic: ATGAGAAACCTACTGAGGATTACAATGACATTGGCGGACTTGAGAAACAGgtaatttgct ... tataacacagATTCAAGAGCTTGTGGAAGCAATAGTGTTACCAATGACACACAAGGACCGA
EST: gi|26456217|gb|CA827800.1|CA827800
EST:     ATGAGAAACCTACTGAGGATTACAATGACATCGGCGGACTTGAGAAACAG                         ATTCCAGAGCTTGTG
genomic: ATGAGAAACCTACTGAGGATTACAATGACATTGGCGGACTTGAGAAACAGgtaatttgct ... tataacacagATTCAAGAGCTTGTG
EST: gi|5268612|gb|AI770576.1|AI770576
EST:     ATGAGAAACCTACTGAGGATTACAATGACATCGGCGGACNTGAGAAACAG                         ATTCAAGAGCTTGTGGAAGCAATAGTGTTACCAATGACACACAAGGACCGA
genomic: ATGAGAAACCTACTGAGGATTACAATGACATTGGCGGACTTGAGAAACAGgtaatttgct ... tataacacagATTCAAGAGCTTGTGGAAGCAATAGTGTTACCAATGACACACAAGGACCGA
EST: gi|6056527|gb|AW090917.1|AW090917
EST:     ATGAGAAACCTACTGAGGATTACAATGACATTGGCGGACTTGAGAAACAG                         ATTCAAGAGCTTGTGGAAGCAATAGTGTTACCAATGACACACAAGGACCGA
genomic: ATGAGAAACCTACTGAGGATTACAATGACATTGGCGGACTTGAGAAACAGgtaatttgct ... tataacacagATTCAAGAGCTTGTGGAAGCAATAGTGTTACCAATGACACACAAGGACCGA
EST: gi|211086756|gb|FL006908.1|FL006908
EST:     TGAGAAACCTACTGAGGATTACAATGACATTAGGCGGACTTGAGAAACAG                         ATTCAAGAGCTTGTGGAAGCAATAGTGTTACCAATGACACACAAGGACCGA
genomic: TGAGAAACCTACTGAGGATTACAATGACATT-GGCGGACTTGAGAAACAGgtaatttgct ... tataacacagATTCAAGAGCTTGTGGAAGCAATAGTGTTACCAATGACACACAAGGACCGA
EST: gi|67017349|gb|CO446098.1|CO446098
EST:     ATGAGAAACCTACTGAGGATTACAATGACATCGGCGGACTTGAGAAACAG                         ATTCAAGAGCTTGTGGAAGCATTAGTGTTACCAATGACACACCAGGACCGA
genomic: ATGAGAAACCTACTGAGGATTACAATGACATTGGCGGACTTGAGAAACAGgtaatttgct ... tataacacagATTCAAGAGCTTGTGGAAGCAATAGTGTTACCAATGACACACAAGGACCGA
EST: gi|148962495|gb|EE013359.2|EE013359
EST:     ATGAGAAACCTACTGAGGATTACAATGACATTGGCGGACTTGAGAAACAG                         ATTCAAGAGCTTGTGGAAGCAATAGTGTCACCAATGACACACAAGGACCGA
genomic: ATGAGAAACCTACTGAGGATTACAATGACATTGGCGGACTTGAGAAACAGgtaatttgct ... tataacacagATTCAAGAGCTTGTGGAAGCAATAGTGTTACCAATGACACACAAGGACCGA
EST: gi|149089441|gb|EE178682.2|EE178682
EST:     ATGAGAAACCTACTGAGGATTACAATGACATTGGCGGACTTGAGAAACAG                         ATTCAAGAGCTTGTGGAAGCAATAGTGTTACCAATGACACACAAGGACCGA
genomic: ATGAGAAACCTACTGAGGATTACAATGACATTGGCGGACTTGAGAAACAGgtaatttgct ... tataacacagATTCAAGAGCTTGTGGAAGCAATAGTGTTACCAATGACACACAAGGACCGA
EST: gi|31355810|gb|CD440167.1|CD440167
EST:     ATGAGAAACCTACTGAGGATTACAATGACATTGGCGGACTTGAGAAACAG                         ATTCAAGAGCTTGTGGAAGCAATAGTGTTACCAATGACACACAAGGACCGA
genomic: ATGAGAAACCTACTGAGGATTACAATGACATTGGCGGACTTGAGAAACAGgtaatttgct ... tataacacagATTCAAGAGCTTGTGGAAGCAATAGTGTTACCAATGACACACAAGGACCGA
EST: gi|6538999|gb|AW225138.1|AW225138
EST:     ATGAGAAACCTACTGAGGATTACAATGACATCGGCGGACTTGAGAAACAG                         ATTCAAGAGCTTGTGGAAGCAATAGTGTTACCAATGACACACAAGGACCGA
genomic: ATGAGAAACCTACTGAGGATTACAATGACATTGGCGGACTTGAGAAACAGgtaatttgct ... tataacacagATTCAAGAGCTTGTGGAAGCAATAGTGTTACCAATGACACACAAGGACCGA
EST: gi|60352075|gb|DN219048.1|DN219048
EST:     ATGAGAAACCTACTGAGGATTACAATGACATCGGCGGACTTGAGAAACAG                         ATTCAAGAGCTTGTGGAAGCAATAGTGTTACCAATGACACACAAGGACCGA
genomic: ATGAGAAACCTACTGAGGATTACAATGACATTGGCGGACTTGAGAAACAGgtaatttgct ... tataacacagATTCAAGAGCTTGTGGAAGCAATAGTGTTACCAATGACACACAAGGACCGA


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

ttgtggatttgttacattgcaagcaagcagtaatatgatgtttggtataacacagATTCAAGAGCTTGTGGAAGCAATAGTGTTACCAATGACACACAAGGACCGATTTCAAAAATTGGGCATTCGTCCCCCCAAAGGGGTTCTTTTGTATGGAC
                                            gtataac  putative branch site (score: 3)
                              taatatgat  TA-rich tract