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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtgaaatccattctgttgtgctgattcccttaataagccgtggtgtggtcatttctaatgttactgaaatttctgctattgtggcagGTATTGGAAACAAACAGGGCAGAAGAATCTCACTGTCATGTGCACAGGATGTATTTCATGGGCCCAAACACCTTCAGTGAACCTTGGCATCTCCCACACA

Basic information

species Zea mays
transcript GRMZM2G350818_T01
intron # 7
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GRMZM2G350818_T02 (Zea mays), 3'ss of exon 7
lower sequence: LOC_Os05g09360.1 (Oryza sativa), 3'ss of exon 12
gt-gaaatccattctgttgtgctgattcccttaat-aagccgtggtgtggtcatttctaatgtt-actgaaatttctgctattgtggcagGTATTGGAAACAAACAGGGCAGAAGAATCTCACTGTCATGTGCACAGGATGTATTTCATGGGCCCAAACACCTTCAGTGAACCTTGGCATCTCCCACACA
|| | |   |||||||   | || |||   ||  | |||| |||||||| |  ||     | ||   |||||| ||| ||  ||||| ||||| ||||||| || ||||| ||||||||||||||||||||||||||||||||||||||||| || |||||||||||||||||||||||||| |||||||
gtagcagaacattctgcattcctaatttgtttctttaagctgtggtgtgattgttctggtttttcgttgaaatctctcctcatgtggtagGTACTGGAAACCAATAGGGCCGAAGAATCTCACTGTCATGTGCACAGGATGTATTTCATGGGTCCCAACACCTTCAGTGAACCTTGGCATCTACCACACA

upper sequence: GRMZM2G350818_T02 (Zea mays), 3'ss of exon 7
lower sequence: GLYMA05G36070.2 (Glycine max), 3'ss of exon 15
-gtgaaatccattctgttg-tgctgattcccttaataagccgtggtgtggtcatttctaatgttactgaa-atttctgctattgtggcagGTATTGGAAACAAACAGGGCAGAAGAATCTCACTGTCATGTGCACAGGATGTATTTCATGGGCCCAAACACCTTCAGTGAACCTTGGCATCTCCCACACA
    | | |||   |||   |           | |  | |  |||   | |    || ||| | |||    |||||||  ||  |  ||| |  |||||||||||||    || ||||||||  |||||||||||||| ||||||||   |||||||| || |||||||||||||||||||| |  ||  
gtccataaccaacttgtgaatttcagggatactcaccaactttggaacgttacaatcaaatttaactttgcatttctgtgatc-tttcagATTATGGAAACAAACAGAAGTGAGGAATCTCAGAGTCATGTGCACAGGTTGTATTTCCATGGCCCAAATACATTCAGTGAACCTTGGCATCTACTTCATT

upper sequence: GRMZM2G350818_T02 (Zea mays), 3'ss of exon 7
lower sequence: GLYMA08G03550.1 (Glycine max), 3'ss of exon 16
-------gtgaaatccattctgttgtgctgattcccttaataagccgtggtgtggtcatttctaatgttactgaaatttctgctattgtggcagGTATTGGAAACAAACAGGGCAGAAGAATCTCACTGTCATGTGCACAGGATGTATTTCATGGGCCCAAACACCTTCAGTGAACCTTGGCATCTCCCACACA
          || | | || ||   | | |     || | ||  |  |||  || |    || ||| | |||   | || ||  |   |  ||| |  |||||||||||||    || |||||||   |||||||||||||| ||||||||  ||||||||| || |||||||||||||||||||| || ||  
gtccataactaacttccttgtgaatttcagggatactcattac-ctttggaatgttaccatcaaatttaactttgaattttgtgagc-tttcagATTATGGAAACAAACAGAAGTGAGGAATCTCCGAGTCATGTGCACAGGTTGTATTTCCAGGGCCCAAATACATTCAGTGAACCTTGGCATCTACCTCATT

upper sequence: GRMZM2G350818_T02 (Zea mays), 3'ss of exon 7
lower sequence: AT5G11700.1 (Arabidopsis thaliana), 3'ss of exon 14
-gtgaaatccattctgttgtgctgattcc-cttaataagccgtggtgtggtcatt----tctaatgtta--ctgaaatttctgctattgt-----ggcagGTATTGGAAACAAACAGGGCAGAAGAATCTCACTGTCATGTGCACAGGATGTATTTCATGGGCCCAAACACCTTCAGTGAACCTTGGCATCTCCCACACA
 || |  |   |||    |   | ||||  |  ||||| |||        || ||    |  | ||||   |||   ||| |  | || |     | ||||| ||||||||||| || || ||  |||||||  |||||||||| || |||||||| ||||| || || || ||||||||||| ||||||||| ||||||
agtaatgtttgttcaaaagacataattcagcgaaataatccgccaaacactccttatattacagtgttgtgctgctgtttataatgttattctttgtcagGTGTTGGAAACAAATAGAGCTGAGCAATCTCAGAGTCATGTGCATAGAATGTATTTTATGGGTCCTAATACATTCAGTGAACCGTGGCATCTCTCACACA

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|33770943|gb|CF273237.1|CF273237
EST:     ATAGCTCCCAAATTGATCACTCTTTTCCCTTCCTTGAATCACTGAATGAG                         GTATTGGAAACAAACAGGGCAGAAGAATCTCACTGTCATGTGCACAGGATG
genomic: AGAGCTCCCAAATTGATCACTCTTTTCCCTTCCTTGAATCACTGAATGAGgtgaaatcca ... attgtggcagGTATTGGAAACAAACAGGGCAGAAGAATCTCACTGTCATGTGCACAGGATG






















 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

ataagccgtggtgtggtcatttctaatgttactgaaatttctgctattgtggcagGTATTGGAAACAAACAGGGCAGAAGAATCTCACTGTCATGTGCACAGGATGTATTTCATGGGCCCAAACACCTTCAGTGAACCTTGGCATCTCCCACACA
                    ttctaat  putative branch site (score: 2)
                  atttctaat  TA-rich tract