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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtgtgttagttattgcttgattctgcatatcaattattagctaatttggtagctgcagcttcactattattgctccaaaaggccagtgttgaccatcttcctttctttttgtaacagATATGCATGACTTGAGGCTTATCCACACTGATCTGAAGCCAGAAAACATACTACTTGTGTCTTCTGAGTATATAAAAGTTCCAAGTACAAAG

Basic information

species Zea mays
transcript GRMZM2G366935_T01
intron # 5
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GRMZM2G366935_T07 (Zea mays), 3'ss of exon 5
lower sequence: LOC_Os01g40840.2 (Oryza sativa), 3'ss of exon 5
gtgtgttagttattgcttgattctgcatatcaattattagctaatttggtagctgcagcttca--ctattattgctccaaaaggccagtgttgaccatctt--cctttctttttgt---aacagATATGCATGACTTGAGGCTTATCCACACTGATCTGAAGCCAGAAAACATACTACTTGTGTCTTCTGAGTATATAAAAGTTCCAAGTACAAAG
    ||  || |||| ||||||||||||||||||| ||| | |||| ||||||||| | ||||  ||  | |||||  ||| |  ||   |||||||||||  ||||||||| |     || |||||||||||| ||  | ||||| ||||||||||||||||||||||||||||| ||||||||||| ||||||||||  |||||| || | |||
----gtgtgtgattgtttgattctgcatatcaattcttaacaaattcggtagctgctgattcattcttctgttgctgaaaaggagcatgcttgaccatcttttcctttctttcttctaaaatagATATGCATGAATTACGCCTTATTCACACTGATCTGAAGCCAGAAAACATACTCCTTGTGTCTTCGGAGTATATAAGGGTTCCAGGTTCCAAG

upper sequence: GRMZM2G366935_T07 (Zea mays), 3'ss of exon 5
lower sequence: Vv04s0008g04220.t01 (Vitis vinifera), 3'ss of exon 6
-----------------------------------------gtgtgttagttattgctt-----gattctgcatatcaattatt--agctaatttggtagctgcag-------cttcactattattgctccaaaaggccagtgttgacc--atcttcctttctttttg-----taacagATATGCATGACTTGAGGCTTATCCACACTGATCTGAAGCCAGAAAACATACTACTTGTGTCTTCTGAGTATATAAAAGTTCCAAGTACAAAG
                                         || | ||| ||  |          |||   || |||  || ||   ||   ||| ||   | |||       | ||  ||||||   |           || || ||   || |||||| ||||         ||||||| ||||||| ||  |  | ||||| ||||| |||||||||||||| ||||| ||||| || ||||||| ||||||  |||| ||  | |||
gtgtgtgcattgtccttggcccttgctttatctctcattctgtattttattttctaacctaaccaattacccagatctgttttttgggcctgttttgtttgtccaggactgtacctctgtattatgtttgtgtcctttttgttttaacatgattttccttgctttacaatatccaacagATGTGCATGATTTATGCTTAATCCATACTGACCTGAAGCCAGAAAATATACTTCTTGTATCATCTGAGTGTATAAAGCTTCCTAGCTCCAAG
















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|148983054|gb|EE028963.2|EE028963
EST:     TGTGGAACTTGTGCGGGAGTTTGGACGGCAACTGTTGGAATCTGTAGCAT                         ATATGCATGACTTGAGGCTTATCCACACTGATCTGAAGCCAGAAAACATAC
genomic: TGTGGAACTTGTGCGGGAGTTTGGACGGCAACTGTTGGAATCTGTAGCATgtgtgttagt ... tttgtaacagATATGCATGACTTGAGGCTTATCCACACTGATCTGAAGCCAGAAAACATAC
EST: gi|93015243|gb|EB640763.1|EB640763
EST:     TGTGGAACTTGTGCGGGAGTTTGGACGGCAACTGTTGGAATCTGTAGCAT                         ATATGCATGACTTGAGGCTTATCCACACTGATCTGAAGCCAGAAAACATAC
genomic: TGTGGAACTTGTGCGGGAGTTTGGACGGCAACTGTTGGAATCTGTAGCATgtgtgttagt ... tttgtaacagATATGCATGACTTGAGGCTTATCCACACTGATCTGAAGCCAGAAAACATAC
EST: gi|149000442|gb|EE037616.2|EE037616
EST:     TGTGGAACTTGTGCGGGAGTTTGGACGGCAACTGTTGGAATCTGTAGCAT                         ATATGCATGACTTGAGGCTTATCCACACTGATCTGAAGCCCAGAAA-CATA
genomic: TGTGGAACTTGTGCGGGAGTTTGGACGGCAACTGTTGGAATCTGTAGCATgtgtgttagt ... tttgtaacagATATGCATGACTTGAGGCTTATCCACACTGATCTGAAGCC-AGAAAACATA


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

actattattgctccaaaaggccagtgttgaccatcttcctttctttttgtaacagATATGCATGACTTGAGGCTTATCCACACTGATCTGAAGCCAGAAAACATACTACTTGTGTCTTCTGAGTATATAAAAGTTCCAAGTACAAAG
                        tgttgac  putative branch site (score: 3)
                          ttgaccatcttccttt  CT-rich tract
                                       tttcttttt  TA-rich tract