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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

...atcatatagtcaatgtgtttcctgagttgtctgttgaatgaattttctttcttctgctcttaattgaccatttactgtaaattctttctatttgttttagATGTCATCGAGCCGCTTCTTGTAGAAGTTGACCAAATCTATCACCTTGCTTGCCCTGCTTCACCAATCTTCTACAAGCACAACCCTGTTAAG

Basic information

species Zea mays
transcript GRMZM2G157772_T01
intron # 1
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GRMZM2G157772_T02 (Zea mays), 3'ss of exon 1
lower sequence: LOC_Os03g16980.4 (Oryza sativa), 3'ss of exon 4
atcatatagtcaatgtgtttcctgagttgtctgttgaat-gaattttctttcttctgctcttaattgaccatttactgtaaa--ttctttctatttgttttagATGTCATCGAGCCGCTTCTTGTAGAAGTTGACCAAATCTATCACCTTGCTTGCCCTGCTTCACCAATCTTCTACAAGCACAACCCTGTTAAG
  | || || || |    ||  |  |   || |||  || | || |||     | |  | ||    ||   |  | | |  |  || ||| ||||  ||| |||||||| | |||| || ||||| || |||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||| |||
--ctta-agacactaaactttttttgcgatcagttctatcgtatcttcaaaagtatattattgtgagatattaaaattttgaccttttttttattcatttcagATGTCACCCAGCCCCTGCTTGTGGAGGTTGACCAAATCTATCACCTTGCTTGCCCTGCTTCACCAATCTTCTACAAGCACAACCCTGTCAAG

upper sequence: GRMZM2G157772_T02 (Zea mays), 3'ss of exon 1
lower sequence: GLYMA11G15010.1 (Glycine max), 3'ss of exon 4
atcatatagtcaatgtgtttcctgagttgtctgttgaatgaattttctttcttctgctcttaattgaccatttactgtaaattctttctatttgttt---tagATGTCATCGAGCCGCTTCTTGTAGAAGTTGACCAAATCTATCACCTTGCTTGCCCTGCTTCACCAATCTTCTACAAGCACAACCCTGTTAAG
| ||||   | ||||  ||   | || ||     |   |     || ||   | || | | | || |  |   | || |  | ||||   |||   |    ||||||||  ||||   |  |  | || ||||| ||||||||||| ||||| ||||||||||| ||||||||||||||  |||||||||| |||
aacataacatgaatg-attctatcaggtgcagagtttctctgcgtttttagatgtgttttaatttaatta--aaatgcatgtacttttcttttccctgaacagATGTCACAGAGCAATTGTTGATTGAGGTTGATCAAATCTATCATCTTGCATGCCCTGCTTCTCCAATCTTCTACAAATACAACCCTGTAAAG

upper sequence: GRMZM2G157772_T02 (Zea mays), 3'ss of exon 1
lower sequence: GLYMA12G06980.2 (Glycine max), 3'ss of exon 3
atcatatagtcaatgtgtttcctgagttgtctgttgaatgaattttctttcttctgctcttaattgaccatttactgtaaattctttctatttgttt---tagATGTCATCGAGCCGCTTCTTGTAGAAGTTGACCAAATCTATCACCTTGCTTGCCCTGCTTCACCAATCTTCTACAAGCACAACCCTGTTAAG
| |||    | ||||  |    | |  ||  |  |   |   | || ||   |  | | | | || |  |   | || | || ||||   |||   |    ||||||||  ||||   |  |  | || ||||| ||||||||||| ||||| ||||| ||||| ||||| ||||||||  |||||||||| |||
aacatgacatgaatg-atgctatcatgtgcatagtttttctgtgtttttagatgcgttgtaatttaatta--aaatgcatatacttttattttccctgaacagATGTCACAGAGCAATTGTTGATTGAGGTTGATCAAATCTATCATCTTGCATGCCCAGCTTCTCCAATTTTCTACAAATACAACCCTGTAAAG


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

tctttcttctgctcttaattgaccatttactgtaaattctttctatttgttttagATGTCATCGAGCCGCTTCTTGTAGAAGTTGACCAAATCTATCACCTTGCTTGCCCTGCTTCACCAATCTTCTACAAGCACAACCCTGTTAAG
                aattgac  putative branch site (score: 3)
                                    ttctttctatttgttt  putative PPT
                                taaattctttctattt  TA-rich tract