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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

...taagtttgtgatggtaggaagaccctgcaacatgatttcgtttatccatatgagatgtttagtactacatgaaagctaatatattgcctgttcccaacagATTACAAACACCACAATTGCAAGGCCTCATCCAGGAGCAAAATCCCCCAATCGATCTCTGTGGTCTTCACATCAGCGAGGCAATACACGTCCTGAACTAC

Basic information

species Zea mays
transcript GRMZM5G830874_T02
intron # 7
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GRMZM5G830874_T04 (Zea mays), 3'ss of exon 4
lower sequence: LOC_Os03g08270.3 (Oryza sativa), 3'ss of exon 5
taagtttgtgatggtaggaagaccctgcaacatgatttcgtttatccatatgagatgtttagtactacatgaaag--ctaatatattgcctgttcccaacagATTACAAACACCACAATTGCAAGGCCTCATCCAGGAGCAAAATCCCCCAATCGATCTCTGTGGTCTTCACATCAGCGAGGCAATACACGTCCTGAACTAC
     | ||  |      || |  ||  | | || ||  | || |   | |  | |  |||  |    |||||||  |||||  ||| | ||     | |||||| ||||  ||| |||| ||||||||  | |||||||||||| ||||||| || || |||||||||||| | |||||||| ||||||| ||||||||| 
-ggtgtagtagttcctacaacatgctctatc-tgtttaagattctatctttctgtttcttaccatatgatgaaagttctaatccattccatggctttaccagATTTCAAATGCCAGAATTTCAAGGCCTGGTTCAGGAGCAAAATACCCCAATTGACCTGTGTGGTCTTCACGTAAGCGAGGCGATACACGCCCTGAACTAT
















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|32913918|gb|CF018730.1|CF018730
EST:     CAAAGCCTGTTGGCTCAGGAGAAGGCTAGAGAAACAACATATCGACAAAG                         ATTACAAACCCCCCAATTGCAAGGCCTCATCCAGGAGCAAAATCCCCCAAT
genomic: CAAAGCCTGTTGGCTCAGGAGAAGGCTAGAGAAACAACATATCGACAAAGgtcagatata ... ttcccaacagATTACAAACACCACAATTGCAAGGCCTCATCCAGGAGCAAAATCCCCCAAT
EST: gi|211376348|gb|FL146641.1|FL146641
EST:     CAAAGCCTGTTGGCTCAGGAGAAGGCTAGAGAAACAACATATCGACAAAG                         ATTACAAACACCACAATTGCAAGGCCTCATCCAGGAGCAAAATCCCCCAAT
genomic: CAAAGCCTGTTGGCTCAGGAGAAGGCTAGAGAAACAACATATCGACAAAGgtcagatata ... ttcccaacagATTACAAACACCACAATTGCAAGGCCTCATCCAGGAGCAAAATCCCCCAAT
EST: gi|94474874|gb|EB703832.1|EB703832
EST:     CAAAGCCTGTTGGCTCAGGAGAAGGCTAGAGAAACAACATATCGACAAAG                         ATTACAAACACCACAATTGCAAGGCCTCATCCAGGAGCAAAATCCCCCAAT
genomic: CAAAGCCTGTTGGCTCAGGAGAAGGCTAGAGAAACAACATATCGACAAAGgtcagatata ... ttcccaacagATTACAAACACCACAATTGCAAGGCCTCATCCAGGAGCAAAATCCCCCAAT
EST: gi|211291209|gb|FL443498.1|FL443498
EST:     CAAAGCCTGTTGGCTCAGGAGAAGGCTAGAGAAACAACATATCGACAAAG                         ATTACAAACACCACAATTGCAAGGCCTCATCCAGGAGCAAAATCCCCCAAT
genomic: CAAAGCCTGTTGGCTCAGGAGAAGGCTAGAGAAACAACATATCGACAAAGgtcagatata ... ttcccaacagATTACAAACACCACAATTGCAAGGCCTCATCCAGGAGCAAAATCCCCCAAT
EST: gi|71418229|gb|DR804377.1|DR804377
EST:     CAAAGCCTGTTGGCTCAGGAGAAGGCTAGAGAAACAACATATCGACAAAG                         ATTACAAACACCACAATTGCAAGGCCTCATCCAGGAGCAAAATCCCCCAAT
genomic: CAAAGCCTGTTGGCTCAGGAGAAGGCTAGAGAAACAACATATCGACAAAGgtcagatata ... ttcccaacagATTACAAACACCACAATTGCAAGGCCTCATCCAGGAGCAAAATCCCCCAAT


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

ccatatgagatgtttagtactacatgaaagctaatatattgcctgttcccaacagATTACAAACACCACAATTGCAAGGCCTCATCCAGGAGCAAAATCCCCCAATCGATCTCTGTGGTCTTCACATCAGCGAGGCAATACACGTCCTGAACTAC
                            agctaat  putative branch site (score: 3)
                                         cctgttccc  putative PPT
                          aaagctaatatatt  TA-rich tract