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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtgccagcttctgtttctatgttaatcactgttgctcgcgttggggaaatgttaattgtccatttcgatgtgattgtggtggcgttagTTTCGGAGTGGGCCAATCAGCATAGCTGAATACATGGAGGAGGTGCTGACGAACCCACAGTCAGGATTCTACATCAACCGTGACGTGTTTGGGGAATCAG

Basic information

species Zea mays
transcript GRMZM2G086052_T03
intron # 2
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GRMZM2G086052_T03 (Zea mays), 3'ss of exon 2
lower sequence: LOC_Os01g40620.1 (Oryza sativa), 3'ss of exon 2
----------gtgccagcttctgtttctatgttaatcactgttgctcgc--gttggggaaatgttaattgtccatttcgatgtgattgtggtggcgttagTTTCGGAGTGGGCCAATCAGCATAGCTGAATACATGGAGGAGGTGCTGACGAACCCACAGTCAGGATTCTACATCAACCGTGACGTGTTTGGGGAATCAG
           |   |       | |   || ||||| ||  || | ||   |  || |||||| | |||    | |  |  |  |  |   |  ||||||| || || ||||| |||||| |||| || |||||||||||||||||||||||||| |||||||| |||||||||||||| |||||||| |||  ||| |
gtgtccgctgtttataatgagcctcttcgtgataatctctactgtttgccaatgcggaaaatgtgatttggtgttgtgaaaattgtgattcggaggttagTTCCGCAGCGGGCCTATCAGCGTAGCCGAGTACATGGAGGAGGTGCTGACGAACCCGCAGTCAGGGTTCTACATCAACCGCGACGTGTTCGGGACATCCG
















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|71326245|gb|DR799816.1|DR799816
EST:     AGCCGTCGTCGGAATCCGAGCTCGTCAAGCACATCAAGAGCATCATAAAG                         TTTCGGAGTGGGCCAATCAGCATAGCTGAATACATGGAGGAGGTGCTGACG
genomic: AGCCGTCGTCGGAATCCGAGCTCGTCAAGCACATCAAGAGCATCATAAAGgtgccagctt ... gtggcgttagTTTCGGAGTGGGCCAATCAGCATAGCTGAATACATGGAGGAGGTGCTGACG
EST: gi|32792113|gb|CD944349.1|CD944349
EST:     AGCCGTCGTCGGAATCCGAGCTCGTCAAGCACATCAAGAGCATCATAAAG                         TTTCGGAGTGGGCCAATCAGCATAGCTGAATACATGGAGGAGGTGCTGACG
genomic: AGCCGTCGTCGGAATCCGAGCTCGTCAAGCACATCAAGAGCATCATAAAGgtgccagctt ... gtggcgttagTTTCGGAGTGGGCCAATCAGCATAGCTGAATACATGGAGGAGGTGCTGACG
EST: gi|32826797|gb|CD966475.1|CD966475
EST:     AGCCGTCGTCGGAATCCGAGCTCGTCAAGCACATCAAGAGCATCATAAAG                         TTTCGGAGTGGGCCAATCAACATAGCTGAATACATGGAGGAGGTGCTGACG
genomic: AGCCGTCGTCGGAATCCGAGCTCGTCAAGCACATCAAGAGCATCATAAAGgtgccagctt ... gtggcgttagTTTCGGAGTGGGCCAATCAGCATAGCTGAATACATGGAGGAGGTGCTGACG
EST: gi|93016466|gb|EB641986.1|EB641986
EST:     AGCCGTCGTCGGAATCCGAGCTCGTCAAGCACATCAAGAGCATCATAAAG                         TTTCGGAGTGGGCCAATCAGCATAGCTGAATACATGGAGGAGGTGCTGACG
genomic: AGCCGTCGTCGGAATCCGAGCTCGTCAAGCACATCAAGAGCATCATAAAGgtgccagctt ... gtggcgttagTTTCGGAGTGGGCCAATCAGCATAGCTGAATACATGGAGGAGGTGCTGACG
EST: gi|71297897|gb|DR784919.1|DR784919
EST:     AGCCGTCGTCGGAATCCGAGCTCGTCAAGCACATCAAGAGCATCATAAAG                         TTTCGGAGTGGGCCAATCAGCATAGCTGAATACATGGAGGAGGTGCTGACG
genomic: AGCCGTCGTCGGAATCCGAGCTCGTCAAGCACATCAAGAGCATCATAAAGgtgccagctt ... gtggcgttagTTTCGGAGTGGGCCAATCAGCATAGCTGAATACATGGAGGAGGTGCTGACG
EST: gi|93281358|gb|EB673622.1|EB673622
EST:     AGCCGTCGTCGGAATCCGAGCTCGTCAAGCACATCAAGAGCATCATAAAG                         TTTCGGAGTGGGCCAATCAGCATAGCTGAATACATGGAGGAGGTGCTGACG
genomic: AGCCGTCGTCGGAATCCGAGCTCGTCAAGCACATCAAGAGCATCATAAAGgtgccagctt ... gtggcgttagTTTCGGAGTGGGCCAATCAGCATAGCTGAATACATGGAGGAGGTGCTGACG
EST: gi|78108018|gb|DV526436.1|DV526436
EST:     AGCCGTCGTCGGAATCCGAGCTCGTCAAGCACATCAAGAGCATCATAAAG                         TTTCGGAGTGGGCCAATCAGCATAGCTGAATACATGGAGGAGGTGCTGACG
genomic: AGCCGTCGTCGGAATCCGAGCTCGTCAAGCACATCAAGAGCATCATAAAGgtgccagctt ... gtggcgttagTTTCGGAGTGGGCCAATCAGCATAGCTGAATACATGGAGGAGGTGCTGACG
EST: gi|71313522|gb|DR793329.1|DR793329
EST:     AGCCGTCGTCGGAATCCGAGCTCGTCAAGCACATCAAGAGCATCATAAAG                         TTTCGGAGTGGGCCAATCAGCATAGCTGAATACATGGAGGAGGTGCTGACG
genomic: AGCCGTCGTCGGAATCCGAGCTCGTCAAGCACATCAAGAGCATCATAAAGgtgccagctt ... gtggcgttagTTTCGGAGTGGGCCAATCAGCATAGCTGAATACATGGAGGAGGTGCTGACG
EST: gi|94478202|gb|EB707160.1|EB707160
EST:     CCCGTCGTCGGAATCCCGAGCTCGTCAAGCACATCAAGAGCATCATAAAG                         TTTCCGGAGTGGGCCACTCAGCCTAGCTGAATACATGGAGGAGGCGCTGAC
genomic: GCCGTCGTCGGAATCC-GAGCTCGTCAAGCACATCAAGAGCATCATAAAGgtgccagctt ... gtggcgttagTTTC-GGAGTGGGCCAATCAGCATAGCTGAATACATGGAGGAGGTGCTGAC
EST: gi|71297664|gb|DR784782.1|DR784782
EST:     AGCCGTCGTCGGAATCCGAGCTCGTCAAGCACATCAAGAGCATCATAAAG                         TTTCGGAGTGGGCCAATCAGCATAGCTGAATACATGGAGGAGGTGCTGACG
genomic: AGCCGTCGTCGGAATCCGAGCTCGTCAAGCACATCAAGAGCATCATAAAGgtgccagctt ... gtggcgttagTTTCGGAGTGGGCCAATCAGCATAGCTGAATACATGGAGGAGGTGCTGACG
EST: gi|149097668|gb|EE183570.2|EE183570
EST:     AGCCGTCGTCGGAATCCGAGCTCGTCAAGCACATCAAGAGCATCATAAAG                         TTTCGGAGTGGGCCAATCAGCATAGCTGAATACATGGAGGAGGTGCTGACG
genomic: AGCCGTCGTCGGAATCCGAGCTCGTCAAGCACATCAAGAGCATCATAAAGgtgccagctt ... gtggcgttagTTTCGGAGTGGGCCAATCAGCATAGCTGAATACATGGAGGAGGTGCTGACG
EST: gi|93281137|gb|EB673401.1|EB673401
EST:     AGCCGTCGTCGGAATCCGAGCTCGTCAAGCACATCAAGAGCATCATAAAG                         TTTCGGAGTGGGCCAATCAGCATAGCTGAATACATGGAGGAGGTGCTGACG
genomic: AGCCGTCGTCGGAATCCGAGCTCGTCAAGCACATCAAGAGCATCATAAAGgtgccagctt ... gtggcgttagTTTCGGAGTGGGCCAATCAGCATAGCTGAATACATGGAGGAGGTGCTGACG
EST: gi|76293021|gb|DV032589.1|DV032589
EST:     AGCCGTCGTCGGAATCCGAGCTCGTCAAGCACATCAAGAGCATCATAAAG                         TTTCGGAGTGGGCCAATCAGCATAGCTGAATACATGGAGGAGGTGCTGACG
genomic: AGCCGTCGTCGGAATCCGAGCTCGTCAAGCACATCAAGAGCATCATAAAGgtgccagctt ... gtggcgttagTTTCGGAGTGGGCCAATCAGCATAGCTGAATACATGGAGGAGGTGCTGACG
EST: gi|32824168|gb|CD963890.1|CD963890
EST:     AGCCGTCGTCGGAATCCGAGCTCGTCAAGCACATCAAGAGCATCATAAAG                         TTTCGGAGTGGGCCAATCAGCATAGCTGAATACATGGAGGAGGTGCTGACG
genomic: AGCCGTCGTCGGAATCCGAGCTCGTCAAGCACATCAAGAGCATCATAAAGgtgccagctt ... gtggcgttagTTTCGGAGTGGGCCAATCAGCATAGCTGAATACATGGAGGAGGTGCTGACG
EST: gi|78090509|gb|DV518883.1|DV518883
EST:     AGCCGTCGTCGGAATCCGAGCTCGTCAAGCACATCAAGAGCATCATAAAG                         TTTCGGAGTGGGCCAATCAGCATAGCTGAATACATGGAGGAGGTGCTGACG
genomic: AGCCGTCGTCGGAATCCGAGCTCGTCAAGCACATCAAGAGCATCATAAAGgtgccagctt ... gtggcgttagTTTCGGAGTGGGCCAATCAGCATAGCTGAATACATGGAGGAGGTGCTGACG
EST: gi|89251237|gb|DY623023.1|DY623023
EST:     AGCCGTCGTCGGAATCCGAGCTCGTCAAGCACATCAAGAGCATCATAAAG                         TTTCGGAGTGGGCCAATCAGCATAGCTGAATACATGGAGGAGGTGCTGACG
genomic: AGCCGTCGTCGGAATCCGAGCTCGTCAAGCACATCAAGAGCATCATAAAGgtgccagctt ... gtggcgttagTTTCGGAGTGGGCCAATCAGCATAGCTGAATACATGGAGGAGGTGCTGACG
EST: gi|71772608|gb|DR970536.1|DR970536
EST:     AGCCGTCGTCGGAATCCGAGCTCGTCAAGCACATCAAGAGCATCATAAAG                         TTTCGGAGTGGGCCAATCAGCATAGCTGAATACATGGAGGAGGTGCTGACG
genomic: AGCCGTCGTCGGAATCCGAGCTCGTCAAGCACATCAAGAGCATCATAAAGgtgccagctt ... gtggcgttagTTTCGGAGTGGGCCAATCAGCATAGCTGAATACATGGAGGAGGTGCTGACG


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

gctcgcgttggggaaatgttaattgtccatttcgatgtgattgtggtggcgttagTTTCGGAGTGGGCCAATCAGCATAGCTGAATACATGGAGGAGGTGCTGACGAACCCACAGTCAGGATTCTACATCAACCGTGACGTGTTTGGGGAATCAG
                tgttaat  putative branch site (score: 3)
             aaatgttaatt  TA-rich tract