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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

TGGTGGTACAGGAATGATGATCTTCTCAGACCTTTGTTCATGCTTCCTCCAAAAGATATACCACCATTCTGGCATGCGATTTTTGTCATCATGGTCAACGgtattactgatttgaatttggccatatagtttctcaattgtattactgctaaatattatttaagctatatacacttggctttctctagtttactatagat...

Basic information

species Zea mays
transcript GRMZM2G061980_T01
intron # 3
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GRMZM2G061980_T01 (Zea mays), 5'ss of exon 3
lower sequence: LOC_Os05g25180.1 (Oryza sativa), 5'ss of exon 3
TGGTGGTACAGGAATGATGATCTTCTCAGACCTTTGTTCATGCTTCCTCCAAAAGATATACCACCATTCTGGCATGCGATTTTTGTCATCATGGTCAACGgtattactgatt---tgaatttggccatatagtttctcaattgtatt-----actgctaaatatt--atttaagctatatacacttggctttctctagtttactatagat
||||||||||||||||||||||||||||||||| ||||||||||||| |||||||| ||||| ||||| ||||||||||||||| ||||||||||||| |||| |  || ||   | ||      | |  | || |||   || |||     | |     ||| |  | |    | |||||||      |  || || |           
TGGTGGTACAGGAATGATGATCTTCTCAGACCTCTGTTCATGCTTCCGCCAAAAGAAATACCGCCATTTTGGCATGCGATTTTTATCATCATGGTCAATGgtactgatgcttccttaaagggtttcttgaatttgctcgcatgcatttctccattatctgatagtgaactctgaccatatacatagaagtacctttattg----------

upper sequence: GRMZM2G061980_T01 (Zea mays), 5'ss of exon 3
lower sequence: GLYMA18G45010.1 (Glycine max), 5'ss of exon 3
TGGTGGTACAGGAATGATGATCTTCTCAGACCTTTGTTCATGCTTCCTCCAAAAGATATACCACCATTCTGGCATGCGATTTTTGTCATCATGGTCAACGgtattactgatttgaatttggccatata---gtttctcaattgtattact-gctaaatattatttaagctatatacacttggctttctc-tagtttactatagat-
||||||||   ||||||||||||  |    || ||| ||||||||||||| || |||||||| || |||||||| ||||||||  ||||||||||||| ||| |   |  | | | | |   | | |    | |  |   |||  || ||  ||  ||  | || | |  ||      ||   ||| ||  |  || | || ||  
TGGTGGTATCAGAATGATGATCTAATGTATCCATTGATCATGCTTCCTCCCAAGGATATACCGCCTTTCTGGCACGCGATTTTCATCATCATGGTCAATGgtgt-gtttctctaattctcttcttctccctgatgattgcttgggttgcttactgcatggttttaagggcat-----tttaattttgtcgcaacttgcgattgact

upper sequence: GRMZM2G061980_T01 (Zea mays), 5'ss of exon 3
lower sequence: Vv08s0056g00440.t01 (Vitis vinifera), 5'ss of exon 3
TGGTGGTACAGGAATGATGATCTTCTCAGACCTTTGTTCATGCTTCCTCCAAAAGATATACCACCATTCTGGCATGCGATTTTTGTCATCATGGTCAACGgtat----tactgatttg--aatttggccatatagtttctcaattgtattactgctaaatattatttaagctatatacacttggctttctctagtttactatagat
||||||||    |||| ||||||| |    |||||| ||||||| |||||||||| ||| ||||| ||||||||||| |||||  |||||||||| || ||| |    |  |   ||   ||| || |  | |  ||||  |    |   ||||     |  ||   ||      |  |       |  ||||  || ||      
TGGTGGTATCATAATGGTGATCTTTTATATCCTTTGATCATGCTGCCTCCAAAAGCTATTCCACCTTTCTGGCATGCTATTTTCATCATCATGGTGAATGgtttgttcttttaccttattaatctgtctttttcatttcatacagtttacactgtggtgtggtaggaaaatctattgtagcaaatctcatctaacttgct------

upper sequence: GRMZM2G061980_T01 (Zea mays), 5'ss of exon 3
lower sequence: Vv06s0004g08300.t01 (Vitis vinifera), 5'ss of exon 4
TGGTGGTACAGGAATGATGATCTTCTCAGACCTTTGTTCATGCTTCCTCCAAAAGATATACCACCATTCTGGCATGCGATTTTTGTCATCATGGTCAACGgtattactgatttgaatttggccatatagt--ttctcaattgtattactgctaaatattatttaagctatatacacttggctttctctagtttac-tatagat-
||||||||  ||||| |||| |||||    ||| || |  |||||||||||||||  ||||| |||||||||||||| |||||  |||||||||| || ||||  ||  | |||||  ||  | | ||    |  | | ||  |  | || |   |||   | |||         |      || |  | ||||   |||  | 
TGGTGGTATCGGAATAATGACCTTCTATACCCTCTGGTTTTGCTTCCTCCAAAAGCAATACCTCCATTCTGGCATGCTATTTTCATCATCATGGTGAATGgtaa-ac--acttgaaagtgctcttttatccgtatttacttagaaaaatg-tgtgtatgcctcaagtggctatggcaatatgttgtggaatttatacataactg

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|31360183|gb|CD444540.1|CD444540
EST:     AAAAGATATACCACCATTCTGGCATGCGATTTTTGTCATCATGGGCAACG                         ATACAATGGGTCGCCAAG
genomic: AAAAGATATACCACCATTCTGGCATGCGATTTTTGTCATCATGGTCAACGgtattactga ... ttacttccagATACAATGGTTCGCCAAG