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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtgggggtccccccggcgccgtgttgcttgtggcgtctctctattaatcgttcgtgctggtcgaattgtttgctcatgggtttccccacagGTGGAATGCACCATCCCCAAAGACGACGGCAGCTTGGCGACGTTCGTGGGGTTCCGCGTGCAGCATGATAACGCCCGCGGGCCGATGAAAGGCGGCATCC

Basic information

species Zea mays
transcript GRMZM2G427097_T01
intron # 1
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GRMZM2G427097_T02 (Zea mays), 3'ss of exon 1
lower sequence: LOC_Os04g45970.1 (Oryza sativa), 3'ss of exon 1
gtgggggtccccccggcgccgtgttgcttgtggcgtct--ctctattaatcgttcgtgctggtcgaattgtttgctcatgggt--------------ttccccacagGTGGAATGCACCATCCCCAAAGACGACGGCAGCTTGGCGACGTTCGTGGGGTTCCGCGTGCAGCATGATAACGCCCGCGGGCCGATGAAAGGCGGCATCC
||| |                | ||| ||   |  ||   ||   ||    |    ||||||     ||||||  ||| | ||               ||    ||||||||||||||||||||||||||||| || | ||||||| | ||| | ||||||||||||||||| || || ||||||||||| |||||||| ||||| |
gtgagacggggttttttttttttttgattcctgtttccagcttgttttgctgcggttgctggctttgttgtttcatcaggcgtagcgtaaccccgctctctgttcagGTGGAATGCACCATCCCCAAAGACGATGGAACCTTGGCGTCCTTCATTGGGTTCCGCGTGCAGCACGACAATGCCCGCGGGCCAATGAAAGGTGGCATTC

upper sequence: GRMZM2G427097_T02 (Zea mays), 3'ss of exon 1
lower sequence: Vv16s0039g02750.t01 (Vitis vinifera), 3'ss of exon 1
-------------------------------------------------------------------------gtgggggtccccccggcgccgt-gttgcttgtggc-gtctctctattaatcgttcgtgctggtcgaattgtttgctcatgggtttccccacagGTGGAATGCACCATCCCCAAAGACGACGGCAGCTTGGCGACGTTCGTGGGGTTCCGCGTGCAGCATGATAACGCCCGCGGGCCGATGAAAGGCGGCATCC
                                                                         |  ||  ||        |   |  | | |||||   || ||   |  | |  ||        |   ||  |||| |  |||  ||      ||||||| ||||| || || || || || || ||| |||||||||  ||||||||||| |||||||||||||| || || ||||| ||||| || || ||| 
gttggaattctggggtttttgttcatgggttctatttgattcccgggaattatttgtttatttattttcctttgccggaatcttgtttttgggttcatgggttgtgtttgtttcctgagaatttttttccagaattttgatcttttggtggtggtgttgtt---agGTGGAGTGCACGATTCCGAAGGATGATGGAAGCCTGGCGACGTATGTGGGGTTCCGTGTGCAGCATGATAATGCTCGTGGGCCCATGAAGGGAGGGATCA

upper sequence: GRMZM2G427097_T02 (Zea mays), 3'ss of exon 1
lower sequence: Vv16s0039g02720.t01 (Vitis vinifera), 3'ss of exon 1
-----------------------------------------------------------------------------gtgggggtccccccggcgccgt-gttgcttgtggcgtctctctattaatcgttcgtgctggtcgaattgtttgctcatgggtttccccacagGTGGAATGCACCATCCCCAAAGACGACGGCAGCTTGGCGACGTTCGTGGGGTTCCGCGTGCAGCATGATAACGCCCGCGGGCCGATGAAAGGCGGCATCC
                                                                             |   |  ||        |   |  | | |||||     |  |||  |||  ||        |   ||  |||| |  |||  ||      ||||||| ||||| || || || || || || || ||||||||||  ||||||||||| |||||||||||||| || || ||||| ||||| || || ||| 
gttggaattctggggtttttgttcatgggttccgtttgattcccgggatttatttatttatttatttattttctttagccagaatcttgtttttgggttcatgggttgtgtttgtttcctaagaattttttccagaattttgatcttttggtggtggtgttgtt---agGTGGAGTGCACGATTCCGAAGGATGATGGAAGTTTGGCGACGTATGTGGGGTTCCGTGTGCAGCATGATAATGCTCGTGGGCCCATGAAGGGAGGGATCA

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|18654818|gb|BM499623.1|BM499623
EST:     TCGACTCCAAGCTCGAGCAGAGCCTGCTCATCCCGTTCCGGGAGATCAAG                         GTGGAATGCACCATCCCCAAAGACGACGGCAGCTTGGCGACGTTCGTGGGG
genomic: TCGACTCCAAGCTCGAGCAGAGCCTGCTCATCCCGTTCCGGGAGATCAAGgtgggggtcc ... ttccccacagGTGGAATGCACCATCCCCAAAGACGACGGCAGCTTGGCGACGTTCGTGGGG
EST: gi|18661831|gb|BM501601.1|BM501601
EST:     TCGACTCCAAGCTCGAGCAGAGCCTGCTCATCCCGTTCCGGGAGATCAAG                         GTGGAATGCACCATCCCCAAAGACGACGGCAGCTTGGCGACGTTCGTGGGG
genomic: TCGACTCCAAGCTCGAGCAGAGCCTGCTCATCCCGTTCCGGGAGATCAAGgtgggggtcc ... ttccccacagGTGGAATGCACCATCCCCAAAGACGACGGCAGCTTGGCGACGTTCGTGGGG
EST: gi|71772013|gb|DR969950.1|DR969950
EST:     TCGACTCCAAGCTCGAGCAGAGCCTGCTCATCCCGTTCCGGGAGATCAAG                         GTGGAATGCACCATCCCCAAAGACGACGGCAGCTTGGCGACGTTCGTGGGG
genomic: TCGACTCCAAGCTCGAGCAGAGCCTGCTCATCCCGTTCCGGGAGATCAAGgtgggggtcc ... ttccccacagGTGGAATGCACCATCCCCAAAGACGACGGCAGCTTGGCGACGTTCGTGGGG


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

ctctctattaatcgttcgtgctggtcgaattgtttgctcatgggtttccccacagGTGGAATGCACCATCCCCAAAGACGACGGCAGCTTGGCGACGTTCGTGGGGTTCCGCGTGCAGCATGATAACGCCCGCGGGCCGATGAAAGGCGGCATCC
     tattaat  putative branch site (score: 2)
                                            tttccccac  putative PPT
     tattaat  TA-rich tract