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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtaaggttctttcctgtaatgtttctttctctgagtaactcaactcaagtgccattaacggggatcaaacaatctcctgtgcagGTGGTAGATGCGCTATCCCTGTCGAAGGCAACGATGGCAAAAGTTCACCAAAATTTGGCCTGGGCAGTGGCATATAACATAGTAGCCATTCCAATTGCCG

Basic information

species Zea mays
transcript GRMZM5G855347_T03
intron # 5
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GRMZM5G855347_T03 (Zea mays), 3'ss of exon 5
lower sequence: LOC_Os03g08070.1 (Oryza sativa), 3'ss of exon 14
gtaaggttctttcctgtaatgtttctttctctgagtaactcaactcaagtgc-cattaacggggatcaaacaatctcctgtgcagGTGGTAGATGCGCTATCCCTGTCGAAGGCAACGATGGCAAAAGTTCACCAAAATTTGGCCTGGGCAGTGGCATATAACATAGTAGCCATTCCAATTGCCG
||| | |||| | || || || |  | |  |||  ||  |||| |    | |    |||     |  || ||  || | |   ||||  | |||||  |||| || ||||| ||||| ||||| ||||||||||||||||| |||||||| || ||||||||||||||||| || || |||||||
gtaggattctgttctcta-tgatattgtaactgcatagttcaagtggcattcgtgctaataaacaagaaccaccctacggcttagGTAATGGATGCTTTATCACTTTCGAAAGCAACTATGGCCAAAGTTCACCAAAATTTAGCCTGGGCTGTCGCATATAACATAGTAGCTATCCCTATTGCCG

upper sequence: GRMZM5G855347_T03 (Zea mays), 3'ss of exon 5
lower sequence: GLYMA04G05900.1 (Glycine max), 3'ss of exon 14
------gtaaggttctt----tcctgtaatgtttctttctctgagtaa---ctcaactcaagtgccattaacggggatcaaacaatctcctgt---gcagGTGGTAGATGCGCTATCCCTGTCGAAGGCAACGATGGCAAAAGTTCACCAAAATTTGGCCTGGGCAGTGGCATATAACATAGTAGCCATTCCAATTGCCG
       |||  | ||     | |   | | | || ||| ||   |     |||   ||||        |  |    |  | |||  | || |    ||||| || |||||||||   ||  |  ||||||| |||| ||||||  ||||||||||| | |||||||| ||||||||  | || |||||||| ||||| |
cggataataacatactcaaaattcaaaattctctccttcccttcattttctctccgttcaaacaaatggagggttagtttaccaactttctatttgacagGTTGTCGATGCGCTAGATCTAGCACAGGCAACAATGGGAAAAGTGTACCAAAATTTGTCTTGGGCAGTCGCATATAATGTCGTTGCCATTCCCATTGCTG
















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|60353203|gb|DN220176.1|DN220176
EST:     CTGCCTCTGATGCAGCTTCAGTTGTTCTACTAGGCAACAGACTTTCTCAG                         GTGGTAGATGCGCTATCCCTGTCGAAGGCAACGATGGCAAAAGTTCACCAA
genomic: CTGCCTCTGATGCAGCTTCAGTTGTTCTACTAGGCAACAGACTTTCTCAGgtaaggttct ... tcctgtgcagGTGGTAGATGCGCTATCCCTGTCGAAGGCAACGATGGCAAAAGTTCACCAA
EST: gi|32835068|gb|CD974746.1|CD974746
EST:     CTGCCTCTGATGCAGCTTCAGTTGTTCTACTAGGCAACAGACTTTCTCAG                         GTGGTAGATGCGCTATCCCTGTCGAAGGCAACGATGGCAAAAGTTCACCAA
genomic: CTGCCTCTGATGCAGCTTCAGTTGTTCTACTAGGCAACAGACTTTCTCAGgtaaggttct ... tcctgtgcagGTGGTAGATGCGCTATCCCTGTCGAAGGCAACGATGGCAAAAGTTCACCAA
EST: gi|211367137|gb|FL432362.1|FL432362
EST:     TGCAGCTTCAGTTGTTCTACTAGGCAACAGACTTTCTCAG                         GTGGGTAGATGCGCTATCCCTGTCGAAGGCAACGATGGCAAAAGTTCACCA
genomic: TGCAGCTTCAGTTGTTCTACTAGGCAACAGACTTTCTCAGgtaaggttct ... tcctgtgcagGT-GGTAGATGCGCTATCCCTGTCGAAGGCAACGATGGCAAAAGTTCACCA
EST: gi|5525756|gb|AI861649.1|AI861649
EST:     CTG-CTCTGATGCAGCTTCAGTTGTTCTNCTAGGCANCAGNCTTTCTCAG                         GTGGTAGATGCGCTATCCCTGTCGAAGGCAACGATGGCAAAAGTTCNCCAA
genomic: CTGCCTCTGATGCAGCTTCAGTTGTTCTACTAGGCAACAGACTTTCTCAGgtaaggttct ... tcctgtgcagGTGGTAGATGCGCTATCCCTGTCGAAGGCAACGATGGCAAAAGTTCACCAA
EST: gi|5847391|gb|AW000470.1|AW000470
EST:     CTGCCTCTGATGCAGCTTCAGTTGTTCTACTAGGCAACAGACTTTCTCAG                         GTGGTAGATGCGCTATCCCTGTCGAAGGCAACGATGGCAAA
genomic: CTGCCTCTGATGCAGCTTCAGTTGTTCTACTAGGCAACAGACTTTCTCAGgtaaggttct ... tcctgtgcagGTGGTAGATGCGCTATCCCTGTCGAAGGCAACGATGGCAAA
EST: gi|60358034|gb|DN225007.1|DN225007
EST:     CTGCCTCTGATGCAGCTTCAGTTGTTCTACTAGGCAACAGACTTTCTCAG                         GTGGTAGATGCGCTATCCCTGTCGAAGGCAACGATGGCAAAAGTTCACCAA
genomic: CTGCCTCTGATGCAGCTTCAGTTGTTCTACTAGGCAACAGACTTTCTCAGgtaaggttct ... tcctgtgcagGTGGTAGATGCGCTATCCCTGTCGAAGGCAACGATGGCAAAAGTTCACCAA
EST: gi|32832471|gb|CD972149.1|CD972149
EST:     CTGCCTCTGATGCAGCTTCAGTTGTTCTACTAGGCAACAGACTTTCTCAG                         GTGGTAGATGCGCTATCCCTGTCGAAGGCAACGATGGCAAAAGTTCACCAA
genomic: CTGCCTCTGATGCAGCTTCAGTTGTTCTACTAGGCAACAGACTTTCTCAGgtaaggttct ... tcctgtgcagGTGGTAGATGCGCTATCCCTGTCGAAGGCAACGATGGCAAAAGTTCACCAA


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

tctgagtaactcaactcaagtgccattaacggggatcaaacaatctcctgtgcagGTGGTAGATGCGCTATCCCTGTCGAAGGCAACGATGGCAAAAGTTCACCAAAATTTGGCCTGGGCAGTGGCATATAACATAGTAGCCATTCCAATTGCCG
                       cattaac  putative branch site (score: 2)
                                           tctcctgt  putative PPT
                                     aaacaat  TA-rich tract