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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

...atttcgttactttggccatttctttttctgtatcacctccacaacctaatgaatggcccatagtgacattgaggtaattttattatgttcttttatgcagTTCTGGAATGCTAAATTTGAAGGACCTCTGTTTGATCACTGGGAAGGCTTCTTGGCTAGCGTACCTG

Basic information

species Zea mays
transcript GRMZM5G886044_T01
intron # 3
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GRMZM5G886044_T02 (Zea mays), 3'ss of exon 2
lower sequence: LOC_Os11g20689.1 (Oryza sativa), 3'ss of exon 3
--atttcgttactttggccatttctttttctgtatcacctccacaacctaatgaatggcccatagtg-acattgaggtaattttattatgttcttttatgcagTTCTGGAATGCTAAATTTGAAGGACCTCTGTTTGATCACTGGGAAGGCTTCTTGGCTAGCGTACCTG
  || |   |  | |     | | | |  | ||   || || | | ||   || ||    ||| |   | |  |||||   ||||||   | || |  ||||| || || ||||||||||||||||| ||||||||||||| ||||||||| |||||| |||| ||||||
tcatatgacttatctatttttctgtatgcccgtgaaacttctatatccgtttgcata---catggcatatacagaggtggctttatttaatcctctcgtgcagCTCAGGGATGCTAAATTTGAAGGAGCTCTGTTTGATCAGTGGGAAGGCATCTTGGTTAGCATACCTG
















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|71432635|gb|DR813685.1|DR813685
EST:     ACTGACGTTGCACCCGTCATCTCCAAGGCCCTTGAAGACGTTTTGACGAG                         TTCTGGAATGCTAAATTTGAAGGACCTCTGTTTGATCACTGGGAAGGCTTC
genomic: ACTGACGTTGCACCCGTCATCTCCAAGGCCCTTGAAGACGTTTTGACGAGgttttttgtt ... ttttatgcagTTCTGGAATGCTAAATTTGAAGGACCTCTGTTTGATCACTGGGAAGGCTTC
EST: gi|76011108|gb|DT938278.1|DT938278
EST:     ACTGACGTTGCACCCGTCATCTCCAAGGCCCTTGAAGACGTTTTGACGAG                         TTCTGGAATGCTAAATTTGAAGGACCTCTGTTTGATCACTGGGAAGGCTTC
genomic: ACTGACGTTGCACCCGTCATCTCCAAGGCCCTTGAAGACGTTTTGACGAGgttttttgtt ... ttttatgcagTTCTGGAATGCTAAATTTGAAGGACCTCTGTTTGATCACTGGGAAGGCTTC
EST: gi|71438985|gb|DR820035.1|DR820035
EST:     ACTGACGTTGCACCCGTCATCTCCAAGGCCCTTGAAGACGTTTTGACGAG                         TTCTGGAATGCTAAATTTGAAGGACCTCTGTTTGATCACTGGGAAGGCTTC
genomic: ACTGACGTTGCACCCGTCATCTCCAAGGCCCTTGAAGACGTTTTGACGAGgttttttgtt ... ttttatgcagTTCTGGAATGCTAAATTTGAAGGACCTCTGTTTGATCACTGGGAAGGCTTC
EST: gi|71427292|gb|DR808342.1|DR808342
EST:     ACTGACGTTGCACCCGTCATCTCCAAGGCCCTTGAAGACGTTTTGACGAG                         TTCTGGAATGCTAAATTTGAAGGACCTCTGTTTGATCACTGGGAAGGCTTC
genomic: ACTGACGTTGCACCCGTCATCTCCAAGGCCCTTGAAGACGTTTTGACGAGgttttttgtt ... ttttatgcagTTCTGGAATGCTAAATTTGAAGGACCTCTGTTTGATCACTGGGAAGGCTTC
EST: gi|166617787|gb|EG215328.1|EG215328
EST:     GCTGACGTTGCACCCGTCATCTCCAAGGCCCTTGAAGACGTTTTGACGAG                         TTCTGGAATGCTAAATTTGAAGGACCTCTGTTTGATCACTGGGAAGG
genomic: ACTGACGTTGCACCCGTCATCTCCAAGGCCCTTGAAGACGTTTTGACGAGgttttttgtt ... ttttatgcagTTCTGGAATGCTAAATTTGAAGGACCTCTGTTTGATCACTGGGAAGG
EST: gi|166622587|gb|EG229984.1|EG229984
EST:     GCTGACGTTGCACCCGTCATCTCCAAGGCCCTTGAAGACGTTTTGACGAG                         TTCTGGAATGCTAAATTTGAAGGACCTCTGTTTGATCACTGGGAAGG
genomic: ACTGACGTTGCACCCGTCATCTCCAAGGCCCTTGAAGACGTTTTGACGAGgttttttgtt ... ttttatgcagTTCTGGAATGCTAAATTTGAAGGACCTCTGTTTGATCACTGGGAAGG
EST: gi|71438108|gb|DR819158.1|DR819158
EST:     ACTGACGTTGCACCCGTCATCTCCAAGGCCCTTGAAGACGTTTTGACGAG                         TTCTGGAATGCTAAATTTGAAGGACCTCTGTTTGATCACTGGGAAGGCTTC
genomic: ACTGACGTTGCACCCGTCATCTCCAAGGCCCTTGAAGACGTTTTGACGAGgttttttgtt ... ttttatgcagTTCTGGAATGCTAAATTTGAAGGACCTCTGTTTGATCACTGGGAAGGCTTC


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

ctaatgaatggcccatagtgacattgaggtaattttattatgttcttttatgcagTTCTGGAATGCTAAATTTGAAGGACCTCTGTTTGATCACTGGGAAGGCTTCTTGGCTAGCGTACCTG
 acctaat  putative branch site (score: 3)
                                        tgttctttt  putative PPT
                             taattttattatgttc  TA-rich tract