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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtactatacccttttcattctcagtatagaactagagcaaatagactctcaagatatgactcgattctctctgttttagGTTGATATTCTTGGGGTGCCCAAAGATACCAAAGATAGAGATGACATCTTGGAAAGTGAGTTCTTTGACACCAGACAGGCATTCCTTAGTCTTTGCCAAG

Basic information

species Zea mays
transcript GRMZM2G139977_T02
intron # 7
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GRMZM2G139977_T01 (Zea mays), 3'ss of exon 13
lower sequence: LOC_Os02g04490.1 (Oryza sativa), 3'ss of exon 14
-----gtactataccc-ttttcattctcagtatagaactagagcaaatagactctcaagatatgactcgattctctc-tgttttagGTTGATATTCTTGGGGTGCCCAAAGATACCAAAGATAGAGATGACATCTTGGAAAGTGAGTTCTTTGACACCAGACAGGCATTCCTTAGTCTTTGCCAAG
       |||  ||   | |||  |    ||  ||||   ||||||||||   || ||  ||| ||| ||| ||  | |  |||||||||| ||| ||||| |||||||||||||||| ||||||||||| ||  |||||||||| || ||||||||||| ||||| ||||||||||| || ||||
gtaactgactgaacttatattctcttcttgttgagaaaaggagcaaatagtaact-aacgtataacttgatccttccatactttagGTTGACATTGTTGGGTTGCCCAAAGATACCAAGGATAGAGATGATATTCTGGAAAGTGAATTTTTTGACACCAGGCAGGCCTTCCTTAGTCTCTGTCAAG

upper sequence: GRMZM2G139977_T01 (Zea mays), 3'ss of exon 13
lower sequence: Vv09s0054g01780.t01 (Vitis vinifera), 3'ss of exon 13
-------------------------------------gtactatacccttttcat---tctcagtatagaactagagcaaat-----agactctcaagatatgactcgattctctctgtttt--agGTTGATATTCTTGGGGTGCCCAAAGATACCAAAGATAGAGATGACATCTTGGAAAGTGAGTTCTTTGACACCAGACAGGCATTCCTTAGTCTTTGCCAAG
                                      |  |||    |  |||    | | |   |   |  |  ||  ||     | | ||| |  | |  | |    |  ||      |  ||||||| ||    |  || ||   |||||| || ||||  ||||| ||  |||| ||||| ||||||||||||||||||||||| || |||||||| ||||
gtaagttctataatccattagttaatatagttaatttttgttatgttttggtcaactatttgaaggttacatcaatgcttatttgcaatattctgatcagaaaattgagcttgctaaaccctgcagGTTGAAATCAACGACGTACCTTCAGATACTAAGGATAAGGATGAGATTCTGGAGAGTGAATTCTTTGACACCAGACAGGCATTTCTGAGTCTTTGTCAAG
















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|76010441|gb|DT937611.1|DT937611
EST:     ACAGGGAGAGGCACCCGAGTAATAATAGAGACACACATATGCTCCATCCG                         GTTGATATTCTTGGGGTGCCCAAAGATACCAAAGATAGAGATGACATCTTG
genomic: ACAGGGAGAGGCACCCGAGTAATAATAGAGACACACATATGCTCCATCCGgtactatacc ... tctgttttagGTTGATATTCTTGGGGTGCCCAAAGATACCAAAGATAGAGATGACATCTTG
EST: gi|71440180|gb|DR821230.1|DR821230
EST:     GAGACACACATATGCTCCATCCG                         GTTGATATTCTTGGGGTGCCCAAAGATACCAAAGATAGAGATGACATCTTG
genomic: GAGACACACATATGCTCCATCCGgtactatacc ... tctgttttagGTTGATATTCTTGGGGTGCCCAAAGATACCAAAGATAGAGATGACATCTTG


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

tatagaactagagcaaatagactctcaagatatgactcgattctctctgttttagGTTGATATTCTTGGGGTGCCCAAAGATACCAAAGATAGAGATGACATCTTGGAAAGTGAGTTCTTTGACACCAGACAGGCATTCCTTAGTCTTTGCCAAG
                                        ttctctctgtttt  CT-rich tract
              aaataga  TA-rich tract