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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtatgtcctttctacagacttaacttgtttgtgccacttcaaggaaaaaatatgtctatttacaccttgaggaacgtagggtgccttataataacataccactgggtttgagcaatagctattgagtcctgagcctgcatgtcaataacactttaaatcttatcagttatgattattttttcagGTGAAAGAGGTTGCTCTTCCAGCAAGAAAAAGGAATGCAAGGCTTTCTTTTGCATTTGTATACCCAGACAAGAATGGTCGTTTTGTTGTCAGACAGGTAA

Basic information

species Zea mays
transcript GRMZM2G064988_T05
intron # 3
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GRMZM2G064988_T05 (Zea mays), 3'ss of exon 3
lower sequence: LOC_Os02g02960.3 (Oryza sativa), 3'ss of exon 4
gtatgtcctttctacagacttaacttgtttgtgccacttcaaggaaaaaatatgtctatttacaccttgaggaacgtagggtgccttataataacata--ccactgggtttgagcaatagctattgagtcctgagcctgcatgtcaataa----cacttt-------aaatcttatcag-----ttatgattattttttcagGTGAAAGAGGTTGCTCTTCCAGCAAGAAAAAGGAATGCAAGGCTTTCTTTTGCATTTGTATACCCAGACAAGAATGGTCGTTTTGTTGTCAGACAGGTAA
   |    |||||| | | |   |||  |||| || |||   ||||||   |  | ||  ||    ||     || ||     |   | |  |||| |         || |||   ||    | || |   ||   || | | | | |||       |||       | |||| |||||     || || |||| ||| ||||||||||||||||||||| ||||||||||||| |||||||||||||||||||| || || ||||| || ||| |||||||||| ||||||| | ||    
--gtaatttttcta-atattgtgctttcttgt-cctctttggggaaaatgaaattttaccta-gttttatactacttaacaaactagaaatcaacaaaatttgactagtctga-tgatgataagtggggtttggcactacgtttgactaaatgttgtttttagatggagatctgatcagcacagttttggttatgttt-cagGTGAAAGAGGTTGCTCTTGCAGCAAGAAAAAGAAATGCAAGGCTTTCTTTTGCTTTCGTGTACCCTGATAAGCATGGTCGTTTCGTTGTCAAAGAG----
















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|211126711|gb|FL428261.1|FL428261
EST:     TTCAGATTTACACATGGAAGGATGCGACCCTCCGCGAGCTCACTGATCTT                         GTGAAAGAGGTTGCTCTTCCAGCAAGAAAAAGGAATGCAGGGCTTTCTTTT
genomic: TTCAGATTTACACATGGAAGGATGCGACCCTCCGCGAGCTCACTGATCTTgtatgtcctt ... attttttcagGTGAAAGAGGTTGCTCTTCCAGCAAGAAAAAGGAATGCAAGGCTTTCTTTT
EST: gi|94479367|gb|EB708325.1|EB708325
EST:     TTCAGATTTACACATGGAAGGATGCGACCCTCCGCGAGCTCACTGATCTT                         GTGAAAGAGGTTGCTCTTCCCAGCAAGAAAAAGGAATGCAAGGCTTTCTTT
genomic: TTCAGATTTACACATGGAAGGATGCGACCCTCCGCGAGCTCACTGATCTTgtatgtcctt ... attttttcagGTGAAAGAGGTTGCTCTTCC-AGCAAGAAAAAGGAATGCAAGGCTTTCTTT
EST: gi|20301244|gb|BQ164187.1|BQ164187
EST:     CACATGGAAGGATGCGACCCTCCGCGAGCTCACTGATCTT                         GTGAAAGAGGTTGCTCTTCCAGCAAGAAAAAGGAATGCAAGGCTTTCTTTT
genomic: CACATGGAAGGATGCGACCCTCCGCGAGCTCACTGATCTTgtatgtcctt ... attttttcagGTGAAAGAGGTTGCTCTTCCAGCAAGAAAAAGGAATGCAAGGCTTTCTTTT
EST: gi|211045986|gb|FL421700.1|FL421700
EST:     TTCAGATTTACACATGGAAGGATGCGACCCTCCGCGAGCTCACTGATCTT                         GTGAAAGAGGTTGCTCTTCCAGCAAGAAAAAGGAATGCAAGGCTTTCTTTT
genomic: TTCAGATTTACACATGGAAGGATGCGACCCTCCGCGAGCTCACTGATCTTgtatgtcctt ... attttttcagGTGAAAGAGGTTGCTCTTCCAGCAAGAAAAAGGAATGCAAGGCTTTCTTTT


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

tgagcctgcatgtcaataacactttaaatcttatcagttatgattattttttcagGTGAAAGAGGTTGCTCTTCCAGCAAGAAAAAGGAATGCAAGGCTTTCTTTTGCATTTGTATACCCAGACAAGAATGGTCGTTTTGTTGTCAGACAGGTAA
             caataac  putative branch site (score: 2)
                                           ttattttttc  putative PPT
                      tttaaatcttatcagt  TA-rich tract