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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtatgtgaagataaaattatacccaaatcaatttatatcctattaaagagaaactaaacacaatccgtttgttcatgcaaaataaaattgtggtagTGAGTGATGATGGCGATAACTGGAGTGCTGGACAGCGTCAGCTCTTCTGTCTTGGCAGAGTTCTCCTACGCAGGAACAAAATTCTAGTTCTAGACGAGGC

Basic information

species Zea mays
transcript GRMZM2G113203_T03
intron # 8
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GRMZM2G113203_T01 (Zea mays), 3'ss of exon 9
lower sequence: LOC_Os06g36650.1 (Oryza sativa), 3'ss of exon 10
gtatgtgaagataaaattatacccaaatcaatttatatcctattaaagagaaactaaacacaatccgtttgttcatgcaaaataaaattgtggtagTGAGTGATGATGGCGATAACTGGAGTGCTGGACAGCGTCAGCTCTTCTGTCTTGGCAGAGTTCTCCTACGCAGGAACAAAATTCTAGTTCTAGACGAGGC
||| ||||    ||  | | |   |||  || |||      |  | |     |  || | ||| |  |||||||||      |       | ||||||||||||||||||  ||||||||||| ||| ||||| ||||||||||||||||||||||||||||| || |||||||| ||||| ||  |||| || ||
gtaagtgacatcaatttcagaggaaaa--aagttaccatgcaaaatatttttagaaatctcaaacaatttgttcat------ttggccaattgtagTGAGTGATGATGGCAGTAACTGGAGTGTTGGGCAGCGGCAGCTCTTCTGTCTTGGCAGAGTTCTCCTCCGTAGGAACAAGATTCTTGTGTTAGATGAAGC

upper sequence: GRMZM2G113203_T01 (Zea mays), 3'ss of exon 9
lower sequence: Vv09s0002g02440.t01 (Vitis vinifera), 3'ss of exon 9
--------------------------------gtatgtgaagataaaatt----atacccaaatcaatttatatcctattaaagagaaactaaacacaatccgtttgttcatgcaaaataaaat--tgtggtagTGAGTGATGATGGCGATAACTGGAGTGCTGGACAGCGTCAGCTCTTCTGTCTTGGCAGAGTTCTCCTACGCAGGAACAAAATTCTAGTTCTAGACGAGGC
                                  |  |||| || ||| |    | | |||| |    ||  |   || || |   |   | ||      | || | || ||   |       |  |     |||||| ||||| || || || |||||||| || || || ||||||||||||||||| ||||| |||||    || || | |||||||||||||||||| ||
gtgagttgaattccataaattaatacacttttacaactgaaaattaaactgaaaacaaccaagttgccttcaacattagtatacc-atttttaatttttgcagtgttttgatcttattctggttcctacaacagTGAGCGATGAAGGTGAGAATTGGAGTGCCGGGCAACGCCAGCTCTTCTGTCTTGGAAGAGTCCTCCTTAAGAGAAATAGAATTCTAGTTCTAGACGAAGC

upper sequence: GRMZM2G113203_T01 (Zea mays), 3'ss of exon 9
lower sequence: Vv09s0002g02430.t01 (Vitis vinifera), 3'ss of exon 10
-----gtatgtgaagataaaattatacccaaatcaatttatatcctattaaagagaa-actaaacacaatccgttt--gttcatgcaaaataaaattgtggtagTGAGTGATGATGGCGATAACTGGAGTGCTGGACAGCGTCAGCTCTTCTGTCTTGGCAGAGTTCTCCTACGCAGGAACAAAATTCTAGTTCTAGACGAGGC
      |   |  ||  ||||  |||||  ||  || | |      |  |      | |||  | || |||  ||   |||  |||    |   ||      |||||| ||||| || || |||||||||||||| || || ||||||||||| |||||  ||||||| ||    || |||| ||| || |||||||| || ||
gtgagttcaattcagtaaaaaaaatacctcaaaaaactaaagattgacaatccctcatactttatactatcttttaaagtttgtgc----ttggatca-aacagTGAGCGATGAAGGTGAGAACTGGAGTGCTGGGCAACGCCAGCTCTTCTGCCTTGGACGAGTTCTACTCAAGAGAAACAGAATCCTTGTTCTAGATGAAGC

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|33103220|gb|CF063180.1|CF063180
EST:     TCAACTGAAGACAGCAATCAGCACCACCTCTGCTCTTCTGGATACAGTTG                         TGAGTGATGATGGCGATAACTGGAGTGCTGGACAGCGTCAGCTCTTCTGTC
genomic: TCAACTGAAGACAGCAATCAGCACCACCTCTGCTCTTCTGGATACAGTTGgtatgtgaag ... attgtggtagTGAGTGATGATGGCGATAACTGGAGTGCTGGACAGCGTCAGCTCTTCTGTC
EST: gi|18385230|gb|BM418429.1|BM418429
EST:     TCAACTGAAGACAGCAATCAGCACCACCTCTGCTCTTCTGGATACAGTTG                         TGAGTGATGATGGCGATAACTGGAGTGCTGGACAGCGTCAGCTCTTCTGTC
genomic: TCAACTGAAGACAGCAATCAGCACCACCTCTGCTCTTCTGGATACAGTTGgtatgtgaag ... attgtggtagTGAGTGATGATGGCGATAACTGGAGTGCTGGACAGCGTCAGCTCTTCTGTC
EST: gi|101391289|gb|EB817579.1|EB817579
EST:     TCAACTGAAGACAGCAATCAGCACCACCTCTGCTCTTCTGGATACAGTTG                         TGAGTGATGATGGGGATAACGGGAGTGCTGGACAGCGTCAGCTCTTCTGTC
genomic: TCAACTGAAGACAGCAATCAGCACCACCTCTGCTCTTCTGGATACAGTTGgtatgtgaag ... attgtggtagTGAGTGATGATGGCGATAACTGGAGTGCTGGACAGCGTCAGCTCTTCTGTC


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

attaaagagaaactaaacacaatccgtttgttcatgcaaaataaaattgtggtagTGAGTGATGATGGCGATAACTGGAGTGCTGGACAGCGTCAGCTCTTCTGTCTTGGCAGAGTTCTCCTACGCAGGAACAAAATTCTAGTTCTAGACGAGGC
          aactaaa  putative branch site (score: 2)
                                 atgcaaaataaaatt  TA-rich tract