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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtaagatatagcgctcttccatcagtatgtaggctatatatggctttgtcccttccctaccatttgggtaactgtatgattgtcttgcagGTATGTGCTGAAGAAAATCCGTCTTGCGAGGCAGACTGAGCGCTGTCGGAAGTCTGCCCATCAAGAG

Basic information

species Zea mays
transcript GRMZM2G137118_T01
intron # 2
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GRMZM2G137118_T02 (Zea mays), 3'ss of exon 2
lower sequence: LOC_Os05g36960.1 (Oryza sativa), 3'ss of exon 1
---------------------------------------------gtaagatata-gcgctcttccatcagtatgtag-gctatatatggctttgtcccttccctaccatttgggtaactgtatgattgtcttgcagGTATGTGCTGAAGAAAATCCGTCTTGCGAGGCAGACTGAGCGCTGTCGGAAGTCTGCCCATCAAGAG
                                              ||| |  || |    ||| ||  |  ||| || | |  || | ||| |     ||    ||||| |   ||  | | |  | ||    |||||||||| ||||||||||||| |||||||||||||| ||||| || || |||||||| || ||||||
gtgagtggcatagttctattttattttcatctttttaacaacttgataacacttatgtttcctttcactaagatgaagagtttgattttgctgttaatattagtcaccatatatttatatatgttgt-gttgcacagGTATGTGTTGAAGAAAATCCGGCTTGCGAGGCAGACAGAGCGTTGCCGCAAGTCTGCTCACCAAGAG
















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|74241296|gb|DT649210.1|DT649210
EST:     GGGGCTTTCGGTGCCGCCATACTAGTCAATCACAAATCTGAAAAGAAGAA                         GTATGTGCTGAAGAAAATCCGTCTTGCGAGGCAGACTGAGCGCTGTCGGAA
genomic: GGGGCTTTCGGTGCCGCCATACTAGTCAATCACAAATCTGAAAAGAAGAAgtaagatata ... tgtcttgcagGTATGTGCTGAAGAAAATCCGTCTTGCGAGGCAGACTGAGCGCTGTCGGAA






















 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

atatatggctttgtcccttccctaccatttgggtaactgtatgattgtcttgcagGTATGTGCTGAAGAAAATCCGTCTTGCGAGGCAGACTGAGCGCTGTCGGAAGTCTGCCCATCAAGAG
                              gggtaac  putative branch site (score: 3)
                                            ttgtctt  putative PPT
                                       tatgatt  TA-rich tract