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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

...ataatccaagtcacttaattattgtcatgcttctgttcctctatatcaccatgaatattaggtagctttctaatattttaaattatgttggaacttccagACAAGAAGAGCGGAGTTCCATGGTTCTGGATTGATTGGATCCTTCCGAACAATCTATCGGACAGAAGGTCTTTTAGGGTTTTACAG

Basic information

species Zea mays
transcript GRMZM2G161299_T01
intron # 1
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GRMZM2G161299_T01 (Zea mays), 3'ss of exon 1
lower sequence: LOC_Os02g13300.1 (Oryza sativa), 3'ss of exon 1
-ataatccaagtcacttaattattgtcatgcttctgttcctctatatcaccatgaatattaggtagctttctaatattttaa--attatgttggaacttccagACAAGAAGAGCGGAGTTCCATGGTTCTGGATTGATTGGATCCTTCCGAACAATCTATCGGACAGAAGGTCTTTTAGGGTTTTACAG
 | |||          |  ||| |  | ||    |  |  || | ||| | |||  | ||||||||   ||| | |||| ||   || | ||||||||| ||||| |||||||| || ||||||||||||||||| |||||||| || |||||||||| ||| |||||||| |||||||||||||||||
tacaattagtagtttgttgttactaccttgaaattcatgatc-acatctctatg--tcttaggtagtcctctgacatttgaatgtttcttttggaactttcagACTAGAAGAGCAGAATTCCATGGTTCTGGATTAATTGGATCATTTCGAACAATCTCTCGAACAGAAGGGCTTTTAGGGTTTTACAG
















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|211359789|gb|FL457496.1|FL457496
EST:     GACCGTTGTCGCGCCGCTCGAGCGCGTCAAGATCCTGTTCCAG                         ACAAGAAGAGCGGAGTTCCATGGTTCTGGATTGATTGGATCCTTCCGAACA
genomic: GACCGCTGTCGCGCCGCTCGAGCGCGTCAAGATCCTGTTCCAGgtgcgttgca ... gaacttccagACAAGAAGAGCGGAGTTCCATGGTTCTGGATTGATTGGATCCTTCCGAACA
EST: gi|211538575|gb|FL022784.1|FL022784
EST:     TCGCCAAGACCGCTGTCGCGCCGCTCGARCGCGTCAAGATCCTGTTCCAG                         ACAAGAAGAGCGGAATTCCATGGTTCTGGATTGATTGGATCCTTCCGAACA
genomic: TCGCCAAGACCGCTGTCGCGCCGCTCGAGCGCGTCAAGATCCTGTTCCAGgtgcgttgca ... gaacttccagACAAGAAGAGCGGAGTTCCATGGTTCTGGATTGATTGGATCCTTCCGAACA
EST: gi|38687749|gb|CK144780.1|CK144780
EST:     TCGCCAAGACCGCTGTCGCGCCGCTCGAGCGCGTCAAGATCCTGTTCCAG                         ACAAAGAAGAGCGGAGTTCCATGGTTCTGGATTGATTGGATCCTTCCGAAC
genomic: TCGCCAAGACCGCTGTCGCGCCGCTCGAGCGCGTCAAGATCCTGTTCCAGgtgcgttgca ... gaacttccagAC-AAGAAGAGCGGAGTTCCATGGTTCTGGATTGATTGGATCCTTCCGAAC
EST: gi|211538580|gb|FL022789.1|FL022789
EST:     TCGCCAAGACCGCTGTCGCGCCGCTCGAGCGCGTCAAGATCCTGTTCCAG                         ACAAGAAGAGCGGAGTTCCATGGTTCTGGATTGATTGGATCCTTCCGAACA
genomic: TCGCCAAGACCGCTGTCGCGCCGCTCGAGCGCGTCAAGATCCTGTTCCAGgtgcgttgca ... gaacttccagACAAGAAGAGCGGAGTTCCATGGTTCTGGATTGATTGGATCCTTCCGAACA
EST: gi|76294060|gb|DV033628.1|DV033628
EST:     TCGCCAAGACCGCTGTCGCGCCGCTCGAGCGCGTCAAGATCCTGTTCCAG                         ACAAGAAGAGCGGAGTTCCATGGTTCTGGATTGATTGGATCCTTCCGAACA
genomic: TCGCCAAGACCGCTGTCGCGCCGCTCGAGCGCGTCAAGATCCTGTTCCAGgtgcgttgca ... gaacttccagACAAGAAGAGCGGAGTTCCATGGTTCTGGATTGATTGGATCCTTCCGAACA


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

tcaccatgaatattaggtagctttctaatattttaaattatgttggaacttccagACAAGAAGAGCGGAGTTCCATGGTTCTGGATTGATTGGATCCTTCCGAACAATCTATCGGACAGAAGGTCTTTTAGGGTTTTACAG
                      ttctaat  putative branch site (score: 2)
                                                cttcc  putative PPT
                 tagctttctaatattt  TA-rich tract