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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

...tttcctaagtcttatactgattgtggcataatttagccattcatatttatctgcaaggtttcagcacttattgactgaggccatttggtctatggttcagGTATTTGGACTGGAATGAGAACTGTGCGGTACTTCGATGGGAGGACATACGAATGGGTTGGTTTGAGCCGCCAACCCAACATTATCAGTAAG

Basic information

species Zea mays
transcript GRMZM2G110834_T01
intron # 9
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GRMZM2G110834_T02 (Zea mays), 3'ss of exon 8
lower sequence: LOC_Os01g02890.1 (Oryza sativa), 3'ss of exon 8
---tttcctaagtcttatactgattgtggcataatttagccattcatatttatctgcaa--ggtttcagcacttattgactgaggccatttggtctatggttcagGTATTTGGACTGGAATGAGAACTGTGCGGTACTTCGATGGGAGGACATACGAATGGGTTGGTTTGAGCCGCCAACCCAACATTATCAGTAAG
    |||     |   | |  |  |   | ||  |||        | ||  |    ||   | ||||| | |||  |||||| | || ||     | ||||| |||||||||| |||||||||  |||||| | ||||| |||||||||||||| ||||||||||||||||| || |||||||| ||||||||||||
attcttctctgctgcaacatcgtgttatgtatcttttgcttgagta-atagagtgacagttgctttcaactcttcctgactgggaccctta----tttggtttagGTATTTGGGCTGGAATGAAGACTGTGAGATACTTTGATGGGAGGACATATGAATGGGTTGGTTTGAGTCGTCAACCCAATATTATCAGTAAG
















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|60397677|gb|DN230493.1|DN230493
EST:     AGCATTGTCCTAGACATATTGATCTGCAATTGGTTTG                         GTATTTGGACTGGAATGAGAACTGTGCGGTACTTCGATGGGAGGACATACG
genomic: AGCATTGTCCTAGACATATTGATCTGCAATTGGTTTGgtgagatttt ... tatggttcagGTATTTGGACTGGAATGAGAACTGTGCGGTACTTCGATGGGAGGACATACG
EST: gi|91869156|gb|EB400279.1|EB400279
EST:     CCTAGACATATTGATCTGCAATTGGTTTG                         GTATTTGGACTGGAATGAGAACTGTGCGGTACTTCGATGGGAGGACATACG
genomic: CCTAGACATATTGATCTGCAATTGGTTTGgtgagatttt ... tatggttcagGTATTTGGACTGGAATGAGAACTGTGCGGTACTTCGATGGGAGGACATACG
EST: gi|74231927|gb|DT639841.1|DT639841
EST:     GTGCTGGTGGGACAGCATTGTCCTAGACATATTGATCTGCAATTGGTTTG                         GTATTTGGACTGGAATGAGAACTGTGCGGTACTTCGATGGGAGGACATACG
genomic: GTGCTGGTGGGACAGCATTGTCCTAGACATATTGATCTGCAATTGGTTTGgtgagatttt ... tatggttcagGTATTTGGACTGGAATGAGAACTGTGCGGTACTTCGATGGGAGGACATACG
EST: gi|71318559|gb|DR796040.1|DR796040
EST:     GTGCTGGTGGGACAGCATTGTCCTAGACATATTGATCTGCAATTGGTTTG                         GTATTTGGACTGGAATGAGAACTGTGCGGTACTTCGATGGGAGGACATACG
genomic: GTGCTGGTGGGACAGCATTGTCCTAGACATATTGATCTGCAATTGGTTTGgtgagatttt ... tatggttcagGTATTTGGACTGGAATGAGAACTGTGCGGTACTTCGATGGGAGGACATACG


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

tttatctgcaaggtttcagcacttattgactgaggccatttggtctatggttcagGTATTTGGACTGGAATGAGAACTGTGCGGTACTTCGATGGGAGGACATACGAATGGGTTGGTTTGAGCCGCCAACCCAACATTATCAGTAAG
                       tattgac  putative branch site (score: 2)
                    acttatt  TA-rich tract