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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtccgtctggaaccttttatctaatttcatttacttttttgagttgaacggttttaaatgtaatctttggttacagGTGTCCAAGTTGTATGAAGTTGTACCTCCTATCCTCACTGAGCTGGGCAAG

Basic information

species Zea mays
transcript GRMZM2G063851_T01
intron # 17
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GRMZM2G063851_T05 (Zea mays), 3'ss of exon 2
lower sequence: LOC_Os02g10070.1 (Oryza sativa), 3'ss of exon 16
gtccgtctggaacctt-ttatctaatttcatttactttt-ttgagttgaacggttttaaatgtaatc-tttggttacagGTGTCCAAGTTGTATGAAGTTGTACCTCCTATCCTCACTGAGCTGGGCAAG
||  ||||  |  ||   |   |   |   || | |     ||  |  |  || |||| ||  |    |    || ||||| |||||||||||||||||||| |||||||||||||||||||| ||||||
gttagtctaaattctagctgcatggctctcttcagtcccactgtctcaataggatttatatcgacctatcctctttcagGTCTCCAAGTTGTATGAAGTTGTGCCTCCTATCCTCACTGAGCTTGGCAAG

upper sequence: GRMZM2G063851_T05 (Zea mays), 3'ss of exon 2
lower sequence: LOC_Os11g33240.2 (Oryza sativa), 3'ss of exon 16
gtccgtctggaaccttttatctaatttcatttacttttttgagttgaacggttttaaatgtaatctt-----------tggttacagGTGTCCAAGTTGTATGAAGTTGTACCTCCTATCCTCACTGAGCTGGGCAAG
||  ||||  ||  | |  || || | |||     | ||  |||  |||  | | |   | | ||||           |  |  ||||| |||||||||||||||||||| ||||| |||||||||||||| ||||||
gttagtctaaaatgtct-gtccaactgcatggctctcttgcagtccaactatctcattgggattcttatcgatctatatcctgtcagGTCTCCAAGTTGTATGAAGTTGTGCCTCCAATCCTCACTGAGCTTGGCAAG
















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|40335071|gb|CK369141.1|CK369141
EST:     AAAGGGAGTTTGCCCTGAAGCATTTGCCCAAGGATCCACTTTTCCAATTG                         GTGTCCAAGTTGTATGAAGTTGTACCTCCTATCCTCACTGAGCTGGGCAAG
genomic: AAAGGGAGTTTGCCCTGAAGCATTTGCCCAAGGATCCACTTTTCCAATTGgtccgtctgg ... ttggttacagGTGTCCAAGTTGTATGAAGTTGTACCTCCTATCCTCACTGAGCTGGGCAAG
EST: gi|89248619|gb|DY620405.1|DY620405
EST:     AAAGGGAGTTTGCCCTGAAGCATTTGCCCAAGGATCCACTTTTCCAATTG                         GTGTCCAAGTTGTATGAAGTTGTACCTCCTATCCTCACTGAGCTGGGCAAG
genomic: AAAGGGAGTTTGCCCTGAAGCATTTGCCCAAGGATCCACTTTTCCAATTGgtccgtctgg ... ttggttacagGTGTCCAAGTTGTATGAAGTTGTACCTCCTATCCTCACTGAGCTGGGCAAG
EST: gi|5901109|gb|AW042209.1|AW042209
EST:     AAAGGGAGTTTGCCCTGAAGCATTTGCCTGAGGATCCACTTTTCCAATTG                         GTGTCCAAGTTGTATGAAGTTGTACCTCCTATCCTCACTGAGCTGGGCAAG
genomic: AAAGGGAGTTTGCCCTGAAGCATTTGCCCAAGGATCCACTTTTCCAATTGgtccgtctgg ... ttggttacagGTGTCCAAGTTGTATGAAGTTGTACCTCCTATCCTCACTGAGCTGGGCAAG
EST: gi|116813560|gb|EC856011.1|EC856011
EST:     AAAGGGAGTTTGCCCTGAAGCATTTGCCCAAGGATCCACTTTTCCAATTG                         GTGTCCAAGTTGTATGAAGTTGTACCTCCTATCCTCACTGAGCTGGGCAAG
genomic: AAAGGGAGTTTGCCCTGAAGCATTTGCCCAAGGATCCACTTTTCCAATTGgtccgtctgg ... ttggttacagGTGTCCAAGTTGTATGAAGTTGTACCTCCTATCCTCACTGAGCTGGGCAAG
EST: gi|78179069|gb|DV549442.1|DV549442
EST:     AAAGGGAGTTTGCCCTGAAGCATTTGCCTGAGGATCCACTTTTCCAATTG                         GTGTCCAAGTTGTATGAAGTTGTACCTCCTATCCTCACTGAGCTGGGCAAG
genomic: AAAGGGAGTTTGCCCTGAAGCATTTGCCCAAGGATCCACTTTTCCAATTGgtccgtctgg ... ttggttacagGTGTCCAAGTTGTATGAAGTTGTACCTCCTATCCTCACTGAGCTGGGCAAG
EST: gi|31364242|gb|CD448597.1|CD448597
EST:     AAAGGGAGTTTGCCCTGAAGCATTTGCCCAAGGATCCACTTTTCCAATTG                         GTGTCCAAGTTGTATGAAGTTGTACCTCCTATCCTCACTGAGCTGGGCAAG
genomic: AAAGGGAGTTTGCCCTGAAGCATTTGCCCAAGGATCCACTTTTCCAATTGgtccgtctgg ... ttggttacagGTGTCCAAGTTGTATGAAGTTGTACCTCCTATCCTCACTGAGCTGGGCAAG
EST: gi|148929642|gb|EC876096.2|EC876096
EST:     AAAGGGAGTTTGCCCTGAAGCATTTGCCCAAGGATCCACTTTTCCAATTG                         GTGTGCAAGTTGTATGAAGTTGTACCTCCTATCCTCACTGAGCTGGGCAAG
genomic: AAAGGGAGTTTGCCCTGAAGCATTTGCCCAAGGATCCACTTTTCCAATTGgtccgtctgg ... ttggttacagGTGTCCAAGTTGTATGAAGTTGTACCTCCTATCCTCACTGAGCTGGGCAAG
EST: gi|76010584|gb|DT937754.1|DT937754
EST:     AAAGGGAGTTTGCCCTGAAGCATTTGCCCAAGGATCCACTTTTCCAATTG                         GTGTCCAAGTTGTATGAAGTTGTACCTCCTATCCTCACTGAGCTGGGCAAG
genomic: AAAGGGAGTTTGCCCTGAAGCATTTGCCCAAGGATCCACTTTTCCAATTGgtccgtctgg ... ttggttacagGTGTCCAAGTTGTATGAAGTTGTACCTCCTATCCTCACTGAGCTGGGCAAG
EST: gi|31363851|gb|CD448206.1|CD448206
EST:     AAAGGGAGTTTGCCCTGAAGCATTTGCCCAAGGATCCACTTTTCCAATTG                         GTGTCCAAGTTGTATGAAGTTGTACCTCCTATCCTCACTGAGCTGGGCAAG
genomic: AAAGGGAGTTTGCCCTGAAGCATTTGCCCAAGGATCCACTTTTCCAATTGgtccgtctgg ... ttggttacagGTGTCCAAGTTGTATGAAGTTGTACCTCCTATCCTCACTGAGCTGGGCAAG
EST: gi|149100798|gb|EE186892.2|EE186892
EST:     AAAGGGAGTTTGCCCTGAAGCATTTGCCCAAGGATCCACTTTTCCAATTG                         GTGTCCAAGTTGTATGAAGTTGTACCTCCTATCCTCACTGAGCTGGGCAAG
genomic: AAAGGGAGTTTGCCCTGAAGCATTTGCCCAAGGATCCACTTTTCCAATTGgtccgtctgg ... ttggttacagGTGTCCAAGTTGTATGAAGTTGTACCTCCTATCCTCACTGAGCTGGGCAAG
EST: gi|6973552|gb|AW438288.1|AW438288
EST:     AAAGGGAGTTTGCCCTGAAGCATTTGCCTGAGGATCCACTTTTCCAATTG                         GTGTCCAAGTTGTATGAAGTTGTACCTCCTATCCTCACTGAGCTGGGCAAG
genomic: AAAGGGAGTTTGCCCTGAAGCATTTGCCCAAGGATCCACTTTTCCAATTGgtccgtctgg ... ttggttacagGTGTCCAAGTTGTATGAAGTTGTACCTCCTATCCTCACTGAGCTGGGCAAG
EST: gi|110202089|gb|EC883986.1|EC883986
EST:     AAAGGGAGTTTGCCCTGAAGCATTTGCCCAAGGATCCACTTTTCCAATTG                         GTGTCCAAGTTGTATGAAGTTGTACCTCCTATCCTCACTGAGCTGGGCAAG
genomic: AAAGGGAGTTTGCCCTGAAGCATTTGCCCAAGGATCCACTTTTCCAATTGgtccgtctgg ... ttggttacagGTGTCCAAGTTGTATGAAGTTGTACCTCCTATCCTCACTGAGCTGGGCAAG
EST: gi|71771088|gb|DR969025.1|DR969025
EST:     AAAGGGAGTTTGCCCTGAAGCATTTGCCCAAGGATCCACTTTTCCAATTG                         GTGTCCAAGTTGTATGAAGTTGTACCTCCTATCCTCACTGAGCTGGGCAAG
genomic: AAAGGGAGTTTGCCCTGAAGCATTTGCCCAAGGATCCACTTTTCCAATTGgtccgtctgg ... ttggttacagGTGTCCAAGTTGTATGAAGTTGTACCTCCTATCCTCACTGAGCTGGGCAAG
EST: gi|78021514|gb|DV489901.1|DV489901
EST:     AAAGGGAGTTTGCCCTGAAGCATTTGCCTGAGGATCCACTTTTCCAATTG                         GTGTCCAAGTTGTATGAAGTTGTACCTCCTATCCTCACTGAGCTGGGCAAG
genomic: AAAGGGAGTTTGCCCTGAAGCATTTGCCCAAGGATCCACTTTTCCAATTGgtccgtctgg ... ttggttacagGTGTCCAAGTTGTATGAAGTTGTACCTCCTATCCTCACTGAGCTGGGCAAG
EST: gi|37380261|gb|CF626924.1|CF626924
EST:     AAAGGGAGTTTGCCCTGAAGCATTTGCCCAAGGATCCACTTTTCCAATTG                         GTGTCCAAGTTGTATGAAGTTGTACCTCCTATCCTCACTGAGCTGGGCAAG
genomic: AAAGGGAGTTTGCCCTGAAGCATTTGCCCAAGGATCCACTTTTCCAATTGgtccgtctgg ... ttggttacagGTGTCCAAGTTGTATGAAGTTGTACCTCCTATCCTCACTGAGCTGGGCAAG
EST: gi|32796104|gb|CD948340.1|CD948340
EST:     GATCCACTTTTCCAATTG                         GTGTCCAAGTTGTATGAAGTTGTACCTCCTATCCTCACTGAGCTGGGCAAG
genomic: GATCCACTTTTCCAATTGgtccgtctgg ... ttggttacagGTGTCCAAGTTGTATGAAGTTGTACCTCCTATCCTCACTGAGCTGGGCAAG
EST: gi|110954440|gb|EE174492.1|EE174492
EST:     AAAGGGAGTTTGCCCTGAAGCATTTGCCCAAGGATCCACTTTTCCAATTG                         GTGTCCAAGTTGTATGAAGTTGTACCTCCTATCCTCACTGAGCTGGGCAAG
genomic: AAAGGGAGTTTGCCCTGAAGCATTTGCCCAAGGATCCACTTTTCCAATTGgtccgtctgg ... ttggttacagGTGTCCAAGTTGTATGAAGTTGTACCTCCTATCCTCACTGAGCTGGGCAAG
EST: gi|76010585|gb|DT937755.1|DT937755
EST:     AAAGGGAGTTTGCCCTGAAGCATTTGCCCAAGGATCCACTTTTCCAATTG                         GTGTCCAAGTTGTATGAAGTTGTACCTCCTATCCTCACTGAGCTGGGCAAG
genomic: AAAGGGAGTTTGCCCTGAAGCATTTGCCCAAGGATCCACTTTTCCAATTGgtccgtctgg ... ttggttacagGTGTCCAAGTTGTATGAAGTTGTACCTCCTATCCTCACTGAGCTGGGCAAG
EST: gi|148991805|gb|EE033386.2|EE033386
EST:     AAAGGGAGTTTGCCCTGAAGCATTTGCCCAAGGATCCACTTTTCCAATTG                         GTGTCCAAGTTGTATGAAGTTGTACCTCCTATCCTCACTGAGCTGGGCAAG
genomic: AAAGGGAGTTTGCCCTGAAGCATTTGCCCAAGGATCCACTTTTCCAATTGgtccgtctgg ... ttggttacagGTGTCCAAGTTGTATGAAGTTGTACCTCCTATCCTCACTGAGCTGGGCAAG
EST: gi|93284645|gb|EB676909.1|EB676909
EST:     AAAGGGAGTTTGCCCTGAAGCATTTGCCCAAGGATCCACTTTTCCAATTG                         GTGTCCAAGTTGTATGAAGTTGTACCTCCTATCCTCACTGAGCTGGGCAAG
genomic: AAAGGGAGTTTGCCCTGAAGCATTTGCCCAAGGATCCACTTTTCCAATTGgtccgtctgg ... ttggttacagGTGTCCAAGTTGTATGAAGTTGTACCTCCTATCCTCACTGAGCTGGGCAAG
EST: gi|116825307|gb|EC869024.1|EC869024
EST:     AAAGGGAGTTTGCCCTGAAGCATTTGCCCAAGGATCCACTTTTCCAATTG                         GTGTCCAAGTTGTATGGAAGTTGTACCTCCTATCCTCACTGAGCTGG
genomic: AAAGGGAGTTTGCCCTGAAGCATTTGCCCAAGGATCCACTTTTCCAATTGgtccgtctgg ... ttggttacagGTGTCCAAGTTGTATG-AAGTTGTACCTCCTATCCTCACTGAGCTGG
EST: gi|149082973|gb|EE172210.2|EE172210
EST:     GGGAGTTTG-CCTGAAAGCA-TTGCCCCAAGGATCCACTTTTCCAATTG                         GTGTCCAAGTTGTATGAAGTTGTACCTCCTATCCTCACTGAGCTGGGCAAG
genomic: GGGAGTTTGCCCTG-AAGCATTTG-CCCAAGGATCCACTTTTCCAATTGgtccgtctgg ... ttggttacagGTGTCCAAGTTGTATGAAGTTGTACCTCCTATCCTCACTGAGCTGGGCAAG
EST: gi|60395299|gb|DN228168.1|DN228168
EST:     AAAGGGAGTTTGCCCTGAAGCATTTGCCCAAGGATCCACTTTTCCAATTG                         GTGTCCAAGTTGTATGAAGTTGTACCTCCTATCCTCACTGAGCTGGGCAAG
genomic: AAAGGGAGTTTGCCCTGAAGCATTTGCCCAAGGATCCACTTTTCCAATTGgtccgtctgg ... ttggttacagGTGTCCAAGTTGTATGAAGTTGTACCTCCTATCCTCACTGAGCTGGGCAAG


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

taatttcatttacttttttgagttgaacggttttaaatgtaatctttggttacagGTGTCCAAGTTGTATGAAGTTGTACCTCCTATCCTCACTGAGCTGGGCAAG
 atctaat  putative branch site (score: 3)
                                          tcttt  putative PPT
                              ttttaaatgtaatctt  TA-rich tract