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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

...gtgctggtttgatttgtggtcttgtgggacgaattgagagaggcggcactgtaacgtctgccgagaattctgaattcgcggtgtttaatttctattgcagGTCCAATTAATCAGAATCGAGTGTAGGGTGCCAGAGTATGGATGGACAACGCAGAAGGTGTTCCATTTTCTAAACTTCCTTGTGAACGGCGGTGAGCCAG

Basic information

species Zea mays
transcript GRMZM2G003076_T05
intron # 1
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GRMZM2G003076_T05 (Zea mays), 3'ss of exon 1
lower sequence: LOC_Os10g39220.1 (Oryza sativa), 3'ss of exon 1
---gtgctggtttgatttgtggtcttgtgggacgaattgagagaggcggcactgtaacgtctgccgagaattctgaattcgc--ggtgtttaatttctattgcagGTCCAATTAATCAGAATCGAGTGTAGGGTGCCAGAGTATGGATGGACAACGCAGAAGGTGTTCCATTTTCTAAACTTCCTTGTGAACGGCGGTGAGCCAG
       ||| |   | ||   |  ||  |||    |||||    || |     | |    ||   |||| ||| ||||     || | || |||||| ||| |||||||||| ||||||||||| ||||||||||| || || || |||||||| || |||||||||||||| || |||||||| ||||||||||         
taaactttgggtgtttctgaatttctgatggatatcttgag----gctgggtcatgagcgttgt-aagaaatctaaatttttttggggcttgatttctcttgtagGTCCAATTGATCAGAATCGAATGTAGGGTGCCCGAATACGGGTGGACAACACAAAAGGTGTTCCATTTCCTCAACTTCCTCGTGAACGGCG---------

upper sequence: GRMZM2G003076_T05 (Zea mays), 3'ss of exon 1
lower sequence: Vv01s0010g01740.t01 (Vitis vinifera), 3'ss of exon 1
gtgctggtttgatttgtggtcttgtgggacgaattgagagaggcggcactgtaacgtctgccgagaattctgaattcgcggtgtttaatt--tctattgcagGTCCAATTAATCAGAATCGAGTGTAGGGTGCCAGAGTATGGATGGACAACGCAGAAGGTGTTCCATTTTCTAAACTTCCTTGTGAACGGCGGTGAGCCAG
 |     | ||| |  |  | |      |||||   |||| |       |||    | |      ||||   |||  |   |  ||  ||  | | ||  |||| ||| |  |  | ||  | |  || || ||||||||||| ||||| ||||||||||||||||| ||||| || ||||| ||||| || |         
-tttctttatgaatcttcttttccataaacgaaac-agagtgatttttttgtttttttttttttaaatttctaatctgatattatttcttaattttttaaagGTTCAACTGGTTCGGATACAATTGAGAGTCCCAGAGTATGGTTGGACCACGCAGAAGGTGTTCCACTTTCTCAATTTCCTGGTGAATGGGG---------

upper sequence: GRMZM2G003076_T05 (Zea mays), 3'ss of exon 1
lower sequence: EDP05347 (Chlamydomonas reinhardtii), 3'ss of exon 2
gtgctggtttgatttgtggtcttgtgggacgaattgagagaggcggcactgtaacgtctgccgagaattctgaattcgcggtgtttaatttctattgcagGTCCAATTAATCAGAATCGAGTGTAGGGTGCCAGAGTATGGATGGACAACGCAGAAGGTGTTCCATTTTCTAAACTTCCTTGTGAACGGCGGTGAGCCAG-
                                   | |||     |    ||    || |||   || || |||  | |    |   | |  |   |||||| ||| |  |  |  |  ||    | |||||||||||||| ||||| || ||||||||||||||  ||||||||| | | |||  | | | || ||    
-----------------------------------gtgagtacacgagtcgtcggttccgcc---aactcggaaggctcacactgagaataattgcgcagGTACAACTGCTGCGGCTGCAGCTGCGCGTGCCAGAGTATGGCTGGACCACCCAGAAGGTGTTCCACCTTCTAAACTGCTTGGTGT-CTGTGCTGCGCTGCT

upper sequence: GRMZM2G003076_T05 (Zea mays), 3'ss of exon 1
lower sequence: EFJ15891 (Selaginella moellendorffii), 3'ss of exon 1
gtgctggtttgatttgtggtcttgtgggacgaattgagagaggcggcactgtaacgtctgccgagaattctg--aattcgcggtgtttaatttctattgcagGTCCAATTAATCAGAATCGAGTGTAGGGTGCCAGAGTATGGATGGACAACGCAGAAGGTGTTCCATTTTCTAAACTTCCTTGTGAACGGCGGTGAGCCAG
                                  | ||  ||  |   ||   | ||  || | |  | ||    |||  |    |||  ||||| ||  || ||||| |  | |||||  |     ||||||| |||||||| |||||||||||||| ||||||||| | || || ||| |||| || || |         
---------------------------------gtaagttagttgattcttgtaagttagctgtgtttcctatcgattttcttcctttg-tttctttt--agATCCAACTCGTTAGAATACAAATCCGGGTGCCGGAGTATGGCTGGACAACGCAGAAAGTGTTCCATCTCCTCAATTTCTTTGTAAATGGAG---------

upper sequence: GRMZM2G003076_T05 (Zea mays), 3'ss of exon 1
lower sequence: EFJ33253 (Selaginella moellendorffii), 3'ss of exon 1
gtgctggtttgatttgtggtcttgtgggacgaattgagagaggcggcactgtaacgtctgccgagaattctgaattcgcggtgtttaatttctattgcagGTCCAATTAATCAGAATCGAGTGTAGGGTGCCAGAGTATGGATGGACAACGCAGAAGGTGTTCCATTTTCTAAACTTCCTTGTGAACGGCGGTGAGCCAG
                                  | ||  ||  |   ||   | ||  || | |  | ||    |||     |||  || || |   || ||||| |  | |||||  |     ||||||| |||||||| |||||||||||||| ||||||||| | || || ||| |||| || || |         
---------------------------------gtaagttagttgattcttgtaagttagctgtgtttccta---tcg----attttcttcctttgttagATCCAACTCGTTAGAATACAAATCCGGGTGCCGGAGTATGGCTGGACAACGCAGAAAGTGTTCCATCTCCTCAATTTCTTTGTAAATGGAG---------

upper sequence: GRMZM2G003076_T05 (Zea mays), 3'ss of exon 1
lower sequence: EFJ23006 (Selaginella moellendorffii), 3'ss of exon 1
gtgctggtttgatttgtggtcttgtgggacgaattgagagaggcggcactgtaacgtctgccgagaattctgaattcgcggtgtttaatttctattgcagGTCCAATTAATCAGAATCGAGTGTAGGGTGCCAGAGTATGGATGGACAACGCAGAAGGTGTTCCATTTTCTAAACTTCCTTGTGAACGGCGGTGAGCCAG
                          | | | | |  ||   |       ||    |||   ||   ||  | | ||| || |    |||||| | |||| | ||| | ||| | ||||||  | | || || |||||||| ||||| ||||||||||| |||||||| || || |||||||| || || |         
--------------------------gtatggaatccgactagttttctggtcttttctattgattcttggggaatcgtggcg----atttctctcgcagATACAACTCATCCGGATCGAGATTCGCGTCCCCGAGTATGGCTGGACCACGCAGAAGGTCTTCCATTTGCTGAATTTCCTTGTAAATGGAG---------

upper sequence: GRMZM2G003076_T05 (Zea mays), 3'ss of exon 1
lower sequence: EFJ30530 (Selaginella moellendorffii), 3'ss of exon 1
gtgctggtttgatttgtggtcttgtgggacgaattgagagaggcggcactgtaacgtctgccgagaattctgaattcgcggtgtttaatttctattgcagGTCCAATTAATCAGAATCGAGTGTAGGGTGCCAGAGTATGGATGGACAACGCAGAAGGTGTTCCATTTTCTAAACTTCCTTGTGAACGGCGGTGAGCCAG
                         |    ||||   |  ||   |    ||    |||   ||   |   | | ||| || |    |||||| | |||| | ||| | ||| | ||||||  | | || || |||||||| ||||| ||||||||||| |||||||| || || |||||||| || || |         
-------------------------gtatggaatccggctagtttgt-tggtcttttctattgattctcggggaatcgtggcg----atttctctcgcagATACAACTCATCCGGATCGAGATTCGCGTCCCCGAGTATGGCTGGACGACGCAGAAGGTCTTCCATTTGCTGAATTTCCTTGTAAATGGAG---------

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|211382282|gb|FL169261.1|FL169261
EST:     TATTTCACGCGCTCGCCGTGCTCTACGGCATCGTCTCGGCCGTCGCGCTG                         GTCCAATTAATCAGAATCGAGTGTAGGGTGCCAGAGTATGTATGGACAACG
genomic: TATTTCACGCGCTCGCCGTGCTCTACGGCATCGTCTCGGCCGTCGCGCTGgtaagcaccc ... tctattgcagGTCCAATTAATCAGAATCGAGTGTAGGGTGCCAGAGTATGGATGGACAACG






















 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

gcactgtaacgtctgccgagaattctgaattcgcggtgtttaatttctattgcagGTCCAATTAATCAGAATCGAGTGTAGGGTGCCAGAGTATGGATGGACAACGCAGAAGGTGTTCCATTTTCTAAACTTCCTTGTGAACGGCGGTGAGCCAG
                                           tttctatt  CT-rich tract
                                    tgtttaatttctatt  TA-rich tract