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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtaaaacttatatctgttgaaagaaaaactagagcgtgcaactcggtttgctgattcagaggactttaaaatcttctttatccaaactttgtacagCCCATTAAGGAGTCTGCGCTTGGAAACATTCCCACCATCGCCTTCTGTGATACTGATTCCCCTATGCGCTATGTTGATATCGGCATTCCCGCCAATAACA

Basic information

species Zea mays
transcript GRMZM2G159237_T03
intron # 1
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GRMZM2G159237_T03 (Zea mays), 3'ss of exon 1
lower sequence: LOC_Os07g42450.1 (Oryza sativa), 3'ss of exon 2
gtaaaacttatatctgttgaaagaaaaactagagcgtgcaactcggtttgctgattcagaggactttaaaatcttctttatccaaactttgtacagCCCATTAAGGAGTCTGCGCTTGGAAACATTCCCACCATCGCCTTCTGTGATACTGATTCCCCTATGCGCTATGTTGATATCGGCATTCCCGCCAATAACA
|||| | ||   | ||||  |        | |       || | | | |||  ||| || | ||| | ||  || | |  |  ||  | ||||||||| |||||||||||||| |||||||||||||| ||||| ||||||||||| ||||| || || ||||||||||||||||| || ||||| || || ||||
gtaagatttcagtatgtttgattgtttcttgg------taatttgatctgccaattgagtgcactctcaagcctgcctgttgtaa--tgtgtacagCCAATTAAGGAGTCTGCACTTGGAAACATTCCTACCATTGCCTTCTGTGACACTGACTCTCCAATGCGCTATGTTGATATTGGTATTCCTGCTAACAACA

upper sequence: GRMZM2G159237_T03 (Zea mays), 3'ss of exon 1
lower sequence: GLYMA16G01460.1 (Glycine max), 3'ss of exon 2
---------------------------------------------------------------gtaaaacttatatctgttgaaagaaaaactagagcgtgcaactcggtttgctgattcagaggactttaaaatcttctttatccaaactttgtacagCCCATTAAGGAGTCTGCGCTTGGAAACATTCCCACCATCGCCTTCTGTGATACTGATTCCCCTATGCGCTATGTTGATATCGGCATTCCCGCCAATAACA
                                                               ||  |  | || | ||||           | | |  ||       |||  |||  |     |   ||||  | |   ||        | ||| ||||| ||||||||  |||| ||||| || ||||||||||| || |||||||| |||||||| |||||| | ||||| || || || ||||| ||||| ||||
gtggatacccaaatcagcttcaaatgatatatttgattttagttacttgtgctttgattgattgttgacatgatttatgttatgtatgttgtttgcggttgttgtggtgttgactgtgttgt--gttgttaatgtgtgtgtttgttcgtttgtgtgcagCCTATTAAGGAAGCTGCTCTTGGGAATATTCCCACCATTGCTTTCTGTGACACTGATTCGCCTATGAGGTATGTGGACATTGGAATTCCTGCCAACAACA

upper sequence: GRMZM2G159237_T03 (Zea mays), 3'ss of exon 1
lower sequence: GLYMA07G04890.1 (Glycine max), 3'ss of exon 2
--------------------------------------------------------------------gtaaaacttatatctgttgaaagaaaaacta-gagcgtgcaactcggtttgctgattca-----gaggactttaaaatcttctttatccaaactttgtacagCCCATTAAGGAGTCTGCGCTTGGAAACATTCCCACCATCGCCTTCTGTGATACTGATTCCCCTATGCGCTATGTTGATATCGGCATTCCCGCCAATAACA
                                                                    ||   | | ||   || || |    |   |  ||  ||     | || ||| ||  |       |  |  ||   ||| |   ||        | ||| ||||| ||||||||  |||| ||||| || ||||||||||| || |||||||| || ||||| |||||| | || || || || || ||||| ||||| ||||
gttagtaccctattttcatatgcagttatatgaagaaaaaaagatacatttgattctagtcacatgtggtttgattgattgttgatgtagtttatggtgtgattgtttgtttagggttgttgtattgcccgtgttgtgttgttaatgtatgtttgttggtttgtgtgcagCCTATTAAGGAAGCTGCTCTTGGGAATATTCCCACCATTGCTTTCTGTGACACCGATTCACCTATGAGGTACGTGGACATTGGAATTCCTGCCAACAACA

upper sequence: GRMZM2G159237_T03 (Zea mays), 3'ss of exon 1
lower sequence: Vv09s0002g00610.t01 (Vitis vinifera), 3'ss of exon 2
-------gtaaaacttatatctgttgaaagaaaaactagagcgtgcaactcggtttgctgattcagaggactttaaaatcttctttatccaaactttgtacagCCCATTAAGGAGTCTGCGCTTGGAAACATTCCCACCATCGCCTTCTGTGATACTGATTCCCCTATGCGCTATGTTGATATCGGCATTCCCGCCAATAACA
       ||  | || || | | ||   | |     | |||  ||      |  ||  | | ||   |   ||||   |  || | |    |||| | | ||||| ||||||||  |||| || ||||||||||| || || || |||||||| ||||||||||| ||||| |||||||| || || || || ||||||||||
tattttggttcatctaatttatctttgtatagtgtat-gagtttgtgttatgagttatttagtccaggattttta--cttatcatcacaataactgttttcagCCTATTAAGGAAGCTGCACTAGGAAACATTCCAACTATTGCTTTCTGTGACACTGATTCCCCAATGCGGTATGTTGACATTGGTATCCCAGCCAATAACA

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|76908312|gb|DV162877.1|DV162877
EST:     AGTGAGCCACGCCTTCTTATCCTGACTGACCCGAGGACTGATCATCAG                         CCCATTAAGGAGTCTGCGCTTGGAAACATTCCCACCATCGCCTTCTGTGAT
genomic: AGTGAGCCACGCCTTCTTATCCTGACTGACCCGAGGACTGATCATCAGgtaaaactta ... ctttgtacagCCCATTAAGGAGTCTGCGCTTGGAAACATTCCCACCATCGCCTTCTGTGAT
EST: gi|22818897|gb|BU498987.1|BU498987
EST:     TCAGTGAGCCACGCCTTCTTATCCTGACTGACCCGAGGACTGATCATCAG                         CCCATTAAGGAGTCTGCGCTTGGAAACATTCCCACCATCGCCTTCTGTGAT
genomic: TCAGTGAGCCACGCCTTCTTATCCTGACTGACCCGAGGACTGATCATCAGgtaaaactta ... ctttgtacagCCCATTAAGGAGTCTGCGCTTGGAAACATTCCCACCATCGCCTTCTGTGAT
EST: gi|60396348|gb|DN229217.1|DN229217
EST:     GACTGACCCGAGGACTGATCATCAG                         CCCATTAAGGAGTCTGCGCTTGGAAACATTCCCACCATCGCCTTCTGTGAT
genomic: GACTGACCCGAGGACTGATCATCAGgtaaaactta ... ctttgtacagCCCATTAAGGAGTCTGCGCTTGGAAACATTCCCACCATCGCCTTCTGTGAT
EST: gi|76291477|gb|DV031045.1|DV031045
EST:     CGAGGACTGATCATCAG                         CCCATTAAGGAGTCTGCGCTTGGAAACATTCCCACCATCGCCTTCTGTGAT
genomic: CGAGGACTGATCATCAGgtaaaactta ... ctttgtacagCCCATTAAGGAGTCTGCGCTTGGAAACATTCCCACCATCGCCTTCTGTGAT
EST: gi|9566206|gb|BE475715.1|BE475715
EST:     TCAGTGAGCCACGCCTTCTTATCCTGACTGACCCGAGGACTGATCATCAG                         CCCATTAAGGAGTCTGCGCTTGGAAACATTCCCACCATCGCCTTCTGTGAT
genomic: TCAGTGAGCCACGCCTTCTTATCCTGACTGACCCGAGGACTGATCATCAGgtaaaactta ... ctttgtacagCCCATTAAGGAGTCTGCGCTTGGAAACATTCCCACCATCGCCTTCTGTGAT
EST: gi|32848576|gb|CD988257.1|CD988257
EST:     TCAGTGAGCCACGCCTTCTTATCCTGACTGACCCGAGGACTGATCATCAG                         CCCATTAAGGAGTCTGCCCTTGGAAACATTCCCACCATCGCCTTCTGTGAT
genomic: TCAGTGAGCCACGCCTTCTTATCCTGACTGACCCGAGGACTGATCATCAGgtaaaactta ... ctttgtacagCCCATTAAGGAGTCTGCGCTTGGAAACATTCCCACCATCGCCTTCTGTGAT
EST: gi|22541961|gb|BU092399.1|BU092399
EST:     TCAGTGAGCCACGCCTTCTTATCCTGACTGACCCGAGGACTGATCATCAG                         CCCATTAAGGAGTCTGCGCTTGGAAACATTCCCACCATCGCCTTCTGTGAT
genomic: TCAGTGAGCCACGCCTTCTTATCCTGACTGACCCGAGGACTGATCATCAGgtaaaactta ... ctttgtacagCCCATTAAGGAGTCTGCGCTTGGAAACATTCCCACCATCGCCTTCTGTGAT
EST: gi|22819797|gb|BU499887.1|BU499887
EST:     TCAGTGAGCCACGCCTTCTTATCCTGACTGACCCGAGGACTGATCATCAG                         CCCATTAAGGAGTCTGCGCTCGGAAACATTCCCACCATCGCCTTCTGTGAT
genomic: TCAGTGAGCCACGCCTTCTTATCCTGACTGACCCGAGGACTGATCATCAGgtaaaactta ... ctttgtacagCCCATTAAGGAGTCTGCGCTTGGAAACATTCCCACCATCGCCTTCTGTGAT
EST: gi|84980400|gb|DW530749.1|DW530749
EST:     TCAGTGAGCCACGCCTTCTTATCCTGACTGACCCGAGGACTGATCATCAG                         CCCATTAAGGAGTCTGCCCTTGGAAACATTCCCACCATCGCCTTCTGTGAT
genomic: TCAGTGAGCCACGCCTTCTTATCCTGACTGACCCGAGGACTGATCATCAGgtaaaactta ... ctttgtacagCCCATTAAGGAGTCTGCGCTTGGAAACATTCCCACCATCGCCTTCTGTGAT
EST: gi|87298795|gb|DY470798.1|DY470798
EST:     TCAGTGAGCCACGCCTTCTTATCCTGACTGACCCGAGGACTGATCATCAG                         CCCATTAAGGAGTCTGCGCTTGGAAACATTCCCACCATCGCCTTCTGTGAT
genomic: TCAGTGAGCCACGCCTTCTTATCCTGACTGACCCGAGGACTGATCATCAGgtaaaactta ... ctttgtacagCCCATTAAGGAGTCTGCGCTTGGAAACATTCCCACCATCGCCTTCTGTGAT
EST: gi|22472387|gb|BU036867.1|BU036867
EST:     TCAGTGAGCCACGCCTTCTTATCCTGACTGACCCGAGGACTGATCATCAG                         CCCATTAAGGAGTCTGCGCTTGGAAACATTCCCACCATCGCCTTCTGTGAT
genomic: TCAGTGAGCCACGCCTTCTTATCCTGACTGACCCGAGGACTGATCATCAGgtaaaactta ... ctttgtacagCCCATTAAGGAGTCTGCGCTTGGAAACATTCCCACCATCGCCTTCTGTGAT
EST: gi|76280595|gb|DV020163.1|DV020163
EST:     TCAGTGAGCCACGCCTTCTTATCCTGACTGACCCGAGGACTGATCATCAG                         CCCATTAAGGAGTCTGCGCTTGGAAACATTCCCACCATCGCCTTCTGTGAT
genomic: TCAGTGAGCCACGCCTTCTTATCCTGACTGACCCGAGGACTGATCATCAGgtaaaactta ... ctttgtacagCCCATTAAGGAGTCTGCGCTTGGAAACATTCCCACCATCGCCTTCTGTGAT
EST: gi|149102131|gb|EE287570.2|EE287570
EST:     TCAGTGAGCCACGCCTTCTTATCCTGACTGACCCGAGGACTGATCATCAG                         CCCATTAAGGAGTCTGCGCTTGGAAACATTCCCACCATCGCCTTCTGTGAT
genomic: TCAGTGAGCCACGCCTTCTTATCCTGACTGACCCGAGGACTGATCATCAGgtaaaactta ... ctttgtacagCCCATTAAGGAGTCTGCGCTTGGAAACATTCCCACCATCGCCTTCTGTGAT
EST: gi|211079787|gb|FK951931.1|FK951931
EST:     TCAGTGAGCCACGCCTTCTTATCCTGACTGACCCGAGGACTGATCATCAG                         CCCATTAAGGAGTCTGCCCTTGGAAACATTCCCACCATCGCCTTCTGTGAT
genomic: TCAGTGAGCCACGCCTTCTTATCCTGACTGACCCGAGGACTGATCATCAGgtaaaactta ... ctttgtacagCCCATTAAGGAGTCTGCGCTTGGAAACATTCCCACCATCGCCTTCTGTGAT
EST: gi|71311034|gb|DR791823.1|DR791823
EST:     CCCGAGGACTGATCATCAG                         CCCATTAAGGAGTCTGCGCTTGGAAACATTCCCACCATCGCCTTCTGTGAT
genomic: CCCGAGGACTGATCATCAGgtaaaactta ... ctttgtacagCCCATTAAGGAGTCTGCGCTTGGAAACATTCCCACCATCGCCTTCTGTGAT
EST: gi|22472873|gb|BU037353.1|BU037353
EST:     TCAGTTATCCACGCCTTCTTATCCTGACTGACCCGAGGACTGATCATCAG                         CCCATTAAGGAGTCTGCGCTTGGAAACATTCCCACCATCGCCTTCTGTGAT
genomic: TCAGTGAGCCACGCCTTCTTATCCTGACTGACCCGAGGACTGATCATCAGgtaaaactta ... ctttgtacagCCCATTAAGGAGTCTGCGCTTGGAAACATTCCCACCATCGCCTTCTGTGAT
EST: gi|22489242|gb|BU049165.1|BU049165
EST:     TGACTGACCCGAGGACTGATCATCAG                         CCCATTAAGGAGTCTGCGCTTGGAAACATTCCCACCATCGCCTTCTGTGAT
genomic: TGACTGACCCGAGGACTGATCATCAGgtaaaactta ... ctttgtacagCCCATTAAGGAGTCTGCGCTTGGAAACATTCCCACCATCGCCTTCTGTGAT
EST: gi|211082513|gb|FK951932.1|FK951932
EST:     TCAGTGAGCCACGCCTTCTTATCCTGACTGACCCGAGGACTGATCATCAG                         CCCATTAAGGAGTCTGCCCTTGGAAACATTCCCACCATCGCCTTCTGTGAT
genomic: TCAGTGAGCCACGCCTTCTTATCCTGACTGACCCGAGGACTGATCATCAGgtaaaactta ... ctttgtacagCCCATTAAGGAGTCTGCGCTTGGAAACATTCCCACCATCGCCTTCTGTGAT
EST: gi|67030712|gb|CO459461.1|CO459461
EST:     TCAGTGAGCCACGCCTTCTTATCCTGACTGACCCGAGGACTGATCATCAG                         CCCATTAAGGAGTCTGCGCTTGGAAACATTCCCACCATCGCCTTCTGTGAT
genomic: TCAGTGAGCCACGCCTTCTTATCCTGACTGACCCGAGGACTGATCATCAGgtaaaactta ... ctttgtacagCCCATTAAGGAGTCTGCGCTTGGAAACATTCCCACCATCGCCTTCTGTGAT
EST: gi|60398004|gb|DN230820.1|DN230820
EST:     TCAGTGAGCCACGCCTTCTTATCCTGACTGACCCGAGGACTGATCATCAG                         CCCATTAAGGAGTCTGCGCTTGGAAACATTCCCACCATCGCCTTCTGTGAT
genomic: TCAGTGAGCCACGCCTTCTTATCCTGACTGACCCGAGGACTGATCATCAGgtaaaactta ... ctttgtacagCCCATTAAGGAGTCTGCGCTTGGAAACATTCCCACCATCGCCTTCTGTGAT


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

ctcggtttgctgattcagaggactttaaaatcttctttatccaaactttgtacagCCCATTAAGGAGTCTGCGCTTGGAAACATTCCCACCATCGCCTTCTGTGATACTGATTCCCCTATGCGCTATGTTGATATCGGCATTCCCGCCAATAACA
       tgctgat  putative branch site (score: 3)
                       tttaaaatcttcttta  TA-rich tract