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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

CCAAGAACCCGACGTGGGCGTCCGTCACCTACGGTGTCTTCCTCTGCATCGACTGCTCGGCGGTGCACCGCAGCCTCGGCGTCCACGTCTCCTTCGTCAGgtcgcctcgcctcgcctcacctcacctcacctgcttccctttccttctcacacttgtccatgtacgtggaactgtggccatgcccccggtgcatgatagt...

Basic information

species Zea mays
transcript GRMZM2G134045_T02
intron # 2
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GRMZM2G134045_T02 (Zea mays), 5'ss of exon 2
lower sequence: LOC_Os10g42420.1 (Oryza sativa), 5'ss of exon 2
CCAAGAACCCGACGTGGGCGTCCGTCACCTACGGTGTCTTCCTCTGCATCGACTGCTCGGCGGTGCACCGCAGCCTCGGCGTCCACGTCTCCTTCGTCAGgtcgcctcgcctcgcctcacctcacctcacctgcttcc-ctttccttctcacacttgtccatgtacgtggaactgtggccatgcccccggtgcatgatagt
||||||||||||| ||||| |||||||||||||| ||||||||||||||||||||||| || || ||||| ||||||||||| |||||||||||||||||||  || | | |  |  | || |||  |  ||   ||  | | ||||   |  | | ||  |    | ||  |  ||  |    |     |   |     |
CCAAGAACCCGACCTGGGCCTCCGTCACCTACGGCGTCTTCCTCTGCATCGACTGCTCTGCCGTCCACCGTAGCCTCGGCGTTCACGTCTCCTTCGTCAGgttccccctcat-acacccccgcactccttctatgtctgcctgccttacaattcatatcatttactgaggtgccttgagctaatcatgtatttttttctct

upper sequence: GRMZM2G134045_T02 (Zea mays), 5'ss of exon 2
lower sequence: GLYMA08G36700.2 (Glycine max), 5'ss of exon 2
CCAAGAACCCGACGTGGGCGTCCGTCACCTACGGTGTCTTCCTCTGCATCGACTGCTCGGCGGTGCACCGCAGCCTCGGCGTCCACGTCTCCTTCGTCAGg------tcgcctcgcctcgcctcacc--tcacctcacctgcttccctttccttctcacacttgtccatgtacgtg-gaactgtggccatgcccccggtgcatgatagt
| |||||||| || |||||||||||||| || ||  |||| ||||||||||| ||||| || || |||||||| |||||||| ||| ||  |||||| |||      |   ||    | |  |||    | |    |  || |    ||||  |     | ||||   |   | |  ||| | ||    ||   | | |          
CGAAGAACCCTACCTGGGCGTCCGTCACGTATGGGATCTTTCTCTGCATCGATTGCTCCGCCGTACACCGCAGTCTCGGCGTGCACATCAGCTTCGTGAGgcaagtttttgctgattttgtttcaatggtgaatcaatttgttaatttttctgtgcggaaattgtttgtaaccttttgaaatctgattgtgtggctgatt---------

upper sequence: GRMZM2G134045_T02 (Zea mays), 5'ss of exon 2
lower sequence: GLYMA01G12340.1 (Glycine max), 5'ss of exon 2
CCAAGAACCCGACGTGGGCGTCCGTCACCTACGGTGTCTTCCTCTGCATCGACTGCTCGGCGGTGCACCGCAGCCTCGGCGTCCACGTCTCCTTCGTCAGgtcgcctcgcctcgcctcacctcacctcacctgcttccctttccttctcacacttgtccatgtacgtggaactgtggccatgcccccg-gtgcatgatagt
| |||||||| || |||||||||||||| || ||  |||||||||||||||| ||||| || || |||||||| |||||||| ||| ||  |||||| |||     |      |  |    |    |        |   | |   | |   |  ||   |  |  ||     | || | ||      | |||  ||||  |
CGAAGAACCCTACCTGGGCGTCCGTCACGTATGGGATCTTCCTCTGCATCGATTGCTCCGCCGTTCACCGCAGTCTCGGCGTGCACATCAGCTTCGTGAGgcaagtttttgctgattttgtttgaatggtgaatctgtttgttgattttttatgtgcggaaatttgtatcggtttg-caatatgattgtgtggctgattct

upper sequence: GRMZM2G134045_T02 (Zea mays), 5'ss of exon 2
lower sequence: GLYMA01G12340.2 (Glycine max), 5'ss of exon 2
-----CCAAGAACCCGACGTGGGCGTCCGTCACCTACGGTGTCTTCCTCTGCATCGACTGCTCGGCGGTGCACCGCAGCCTCGGCGTCCACGTCTCCTTCGTCAGgtcgcctcgcctcgcctcacctcacctcacctgcttccctttccttctcacacttgtccatgtacgtggaactgtggccatgcccccggtgcatg-atagt--
     | |||||||| || |||||||||||||| || ||  |||||||||||||||| ||||| || || |||||||| |||||||| ||| ||  |||||| |||    |  |  |   || |  |    | |   |     || |   |       || |  |||| ||   |  |||  |  |   |    ||  ||  | |   
CAATGCGAAGAACCCTACCTGGGCGTCCGTCACGTATGGGATCTTCCTCTGCATCGATTGCTCCGCCGTTCACCGCAGTCTCGGCGTGCACATCAGCTTCgtgagg----caagtttttgctgattttgtttgaatggtgaatctgtttgt----tgattttttatgtgcggaaatttgtatcggtttgcaatatgattgtgtggctg

upper sequence: GRMZM2G134045_T02 (Zea mays), 5'ss of exon 2
lower sequence: Vv02s0012g01330.t01 (Vitis vinifera), 5'ss of exon 2
CCAAGAACCCGACGTGGGCGTCCGTCACCTACGGTGTCTTCCTCTGCATCGACTGCTCGGCGGTGCACCGCAGCCTCGGCGTCCACGTCTCCTTCGTCAGgtcgcctcg-cctcgcctcacctcacctcacctgcttccctttccttctcacactt--gtccatgtacgtggaactgtggccatgcccccggtgcatgatagt
| ||||||||||| |||||||||||||| || ||  |||||||||||||||||||||| || |||||  | || || || || ||| ||  |||||||||||    ||    | |  |         |       |    |    || |  || ||   |      |  ||  | |  | | | |     | |  | |||   
CGAAGAACCCGACTTGGGCGTCCGTCACGTATGGGATCTTCCTCTGCATCGACTGCTCCGCCGTGCATAGGAGTCTTGGGGTTCACATCAGCTTCGTCAGgtgatttcaattttgagttttggtggtttgatccatgatttagggttttggcagttcaatttggtgatttgatatttcgactagggttttgatttaagat---

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|32926976|gb|CF031788.1|CF031788
EST:     GACTGCTCGGCGGTGCACCGCAGCCTCGGCGTCCACGTCTCCTTCGTCAG                         GTCAACAAATTTGGATTCATGGACTCCAGACCAGCTGAAAATGATGGTCTA
genomic: GACTGCTCGGCGGTGCACCGCAGCCTCGGCGTCCACGTCTCCTTCGTCAGgtcgcctcgc ... caatatgcagGTCAACAAATTTGGATTCATGGACTCCAGAACAGCTGAAAATGATGGTCTA
EST: gi|89759291|gb|DY688160.1|DY688160
EST:     GACTGCTCGGCGGTGCACCGCAGCCTCGGCGTCCACGTCTCCTTCGTCAG                         GTCAACAAATTTGGATTCATGGACTCCAGAACAGCTGAAAATGATGGTCTA
genomic: GACTGCTCGGCGGTGCACCGCAGCCTCGGCGTCCACGTCTCCTTCGTCAGgtcgcctcgc ... caatatgcagGTCAACAAATTTGGATTCATGGACTCCAGAACAGCTGAAAATGATGGTCTA
EST: gi|6637089|gb|AW261361.1|AW261361
EST:     GACTGCTCGGCGGTGCACCGCAGCCTCGGCGTCCACGTCTCCTTCGTCAG                         GTCAACAAATTTGGATTCATGGACTCCAGAACAGCTGAAAATGATGGTCTA
genomic: GACTGCTCGGCGGTGCACCGCAGCCTCGGCGTCCACGTCTCCTTCGTCAGgtcgcctcgc ... caatatgcagGTCAACAAATTTGGATTCATGGACTCCAGAACAGCTGAAAATGATGGTCTA
EST: gi|32926997|gb|CF031809.1|CF031809
EST:     GACTGCTCGGCGGTGCACCGCAGCCTCGGCGTCCACGTCTCCTTCGTCAG                         GTCAACAAATTTGGATTCATGGACTCCAGAACACCTGAAAATGATGGTCTA
genomic: GACTGCTCGGCGGTGCACCGCAGCCTCGGCGTCCACGTCTCCTTCGTCAGgtcgcctcgc ... caatatgcagGTCAACAAATTTGGATTCATGGACTCCAGAACAGCTGAAAATGATGGTCTA
EST: gi|31358549|gb|CD442906.1|CD442906
EST:     GACTGCTCGGCGGTGCACCGCAGCCTCGGCGTCCACGTCTCCTTCGTCAG                         GTCAACAAATTTGGATTCATGGACTCCAGAACAGCTGAAAATGATGGTCTA
genomic: GACTGCTCGGCGGTGCACCGCAGCCTCGGCGTCCACGTCTCCTTCGTCAGgtcgcctcgc ... caatatgcagGTCAACAAATTTGGATTCATGGACTCCAGAACAGCTGAAAATGATGGTCTA
EST: gi|32869081|gb|CF008763.1|CF008763
EST:     GACTGCTCGGCGGTGCACCGCAGCCTCGGCGTCCACGTCTCCTTCGTCAG                         GTCAACAAATTTGGATTCATGGACTCCAGAACAGCTGAAAATGATGGTCTA
genomic: GACTGCTCGGCGGTGCACCGCAGCCTCGGCGTCCACGTCTCCTTCGTCAGgtcgcctcgc ... caatatgcagGTCAACAAATTTGGATTCATGGACTCCAGAACAGCTGAAAATGATGGTCTA
EST: gi|32925344|gb|CF030156.1|CF030156
EST:     GACTGCTCGGCGGTGCACCGCAGCCTCGGCGTCCACGTCTCCTTCGTCAG                         GTCAACAAATTTGGATTCATGGACTCCAGAACAGCTGAAAATGATGGTCTA
genomic: GACTGCTCGGCGGTGCACCGCAGCCTCGGCGTCCACGTCTCCTTCGTCAGgtcgcctcgc ... caatatgcagGTCAACAAATTTGGATTCATGGACTCCAGAACAGCTGAAAATGATGGTCTA