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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtatgaaggatcaactagtgtcgagtcaaatgtgaaatcttttctcttcaccttcttattatttccttgctgtttcatagGAGCGATCTGTATCGACCATCTTGTATCTTGTGTCACTTCAAGATCTTACCAACTGCCCTTTTCGGGTTGTTGATGAGATAAATCAAG

Basic information

species Zea mays
transcript GRMZM2G440916_T02
intron # 25
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GRMZM2G440916_T01 (Zea mays), 3'ss of exon 25
lower sequence: LOC_Os05g51790.2 (Oryza sativa), 3'ss of exon 25
gtatgaaggatcaactagtgtcgagtcaaatgtgaaatcttttctcttcaccttcttattatttccttgctgtttcatagGAGCGATCTGTATCGACCATCTTGTATCTTGTGTCACTTCAAGATCTTACCAACTGCCCTTTTCGGGTTGTTGATGAGATAAATCAAG
|||||||  |  |||||   |    |  | | |  ||   | |  |||   |||  ||||||||  |||||  || |||||||||||| || || |||||| |||| ||||| |||||||||||||||||||||||||| |||||||| |||||||||||||||||||
gtatgaaaaa--aacta---ttagatgcattctagaaaaatatgccttatacttactattatttt-ttgctcctttatagGAGCGATCAGTTTCAACCATCCTGTACCTTGTATCACTTCAAGATCTTACCAACTGCCCCTTTCGGGTCGTTGATGAGATAAATCAAG

upper sequence: GRMZM2G440916_T01 (Zea mays), 3'ss of exon 25
lower sequence: GLYMA20G34020.1 (Glycine max), 3'ss of exon 26
gtatgaaggatcaactagtgtcgagtcaaatgtgaaatcttttctcttcaccttcttattatttccttgctgtttcatagGAGCGATCTGTATCGACCATCTTGTATCTTGTGTCACTTCAAGATCTTACCAACTGCCCTTTTCGGGTTGTTGATGAGATAAATCAAG
|||| |   |  || | || ||   | | || ||   | | || || || | |  | |   ||    |    |||  ||||| || || || || || ||  | |||||||| || |||||||||||||| |||||||| ||| | || ||||||||||| || ||||
gtattacaaag-aatttgtttcttattacatttgttctatgttttcctcccttaatgaaccttggggtttgattttctagGAACGCTCAGTTTCAACTATTGTTTATCTTGTTTCCCTTCAAGATCTTACAAACTGCCCATTTAGAGTCGTTGATGAGATCAACCAAG

upper sequence: GRMZM2G440916_T01 (Zea mays), 3'ss of exon 25
lower sequence: Vv13s0064g00180.t01 (Vitis vinifera), 3'ss of exon 25
gtatgaaggatcaactagtgtcgagtcaaatgtgaaatcttttctcttcacctt--cttattatttcc---ttgctgtttcatagGAGCGATCTGTATCGACCATCTTGTATCTTGTGTCACTTCAAGATCTTACCAACTGCCCTTTTCGGGTTGTTGATGAGATAAATCAAG
|||  | | || ||| |   |    | | ||   | ||||||| |    |  ||  |||| |   |     || |  |||  |||||||| || ||  | || ||  |||||||||| || || |||||||| || |||||||||||| |||| |||||||||||||||||||
gtaccatg-atgaaccaacttt---ttacattcaagatcttttatgactattttgtcttactgccttgaaatttccattttgtagGAGCGCTCAGTTGCAACTATTCTGTATCTTGTTTCTCTACAAGATCTCACAAACTGCCCTTTTAGGGTGGTTGATGAGATAAATCAAG

upper sequence: GRMZM2G440916_T01 (Zea mays), 3'ss of exon 25
lower sequence: EFJ13183 (Selaginella moellendorffii), 3'ss of exon 23
gtatgaaggatcaactagtgtcgagtcaaatgtgaaatcttttctct-tcacctt--cttattatttccttgctgtttcatagGAGCGATCTGTATCGACCATCTTGTATCTTGTGTCACTTCAAGATCTTACCAACTGCCCTTTTCGGGTTGTTGATGAGATAAATCAAG
                             |  | |  ||  |  |   | |||||   || |   ||   |   ||||   |||| || || || || || ||  | || ||||| ||||| ||||| |||||| |||| || ||||| ||||| ||||||||||| ||||
---------------------------gtacataatttccgtgattagtaaccttggtttgtggattgagtctcgtttt-cagGAACGCTCGGTGTCAACTATTCTCTACCTTGTCTCACTCCAAGACCTTACCCACTGTCCGTTTCGTGTTGTGGATGAGATAAACCAAG

upper sequence: GRMZM2G440916_T01 (Zea mays), 3'ss of exon 25
lower sequence: EFJ24458 (Selaginella moellendorffii), 3'ss of exon 24
gtatgaaggatcaactagtgtcgagtcaaatgtgaaatcttttctct-tcacctt--cttattatttccttgctgtttcatagGAGCGATCTGTATCGACCATCTTGTATCTTGTGTCACTTCAAGATCTTACCAACTGCCCTTTTCGGGTTGTTGATGAGATAAATCAAG
                             |  | |  ||  |  |   | |||||   || |   ||   |   ||||   |||| || || || || || ||  | || ||||| ||||| ||||| |||||| |||| || ||||| ||||| ||||||||||| ||||
---------------------------gtacataatttccgtgattagtaaccttggtttgtggattgagtctcgtttt-cagGAACGCTCGGTGTCAACTATACTCTACCTTGTCTCACTCCAAGACCTTACCCACTGTCCGTTTCGTGTTGTGGATGAGATAAACCAAG

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|32930688|gb|CF035500.1|CF035500
EST:     GCAAACTAGTCAGCTGCAGGTGCTAAGCTCTCATCACCAATCTGGAGGG                         GAGCGATCTGTATCGACCATCTTGTATCTTGTGTCACTTCAAGATCTTACC
genomic: GCAAACTAGTCAGCTGCAGGTGCTAAGCTCTCATCACCAATCTGGAGGGgtatgaagga ... tgtttcatagGAGCGATCTGTATCGACCATCTTGTATCTTGTGTCACTTCAAGATCTTACC
EST: gi|211323885|gb|FK953781.1|FK953781
EST:     GGCAAACTAGTCAGCTGCAGGTGCTAAGCTCTCATCACCAATCTGGAGGG                         GAGCGATCTGTATCGACCATCTTGTATCTTGTGTCACTTCAAGATCTTACC
genomic: GGCAAACTAGTCAGCTGCAGGTGCTAAGCTCTCATCACCAATCTGGAGGGgtatgaagga ... tgtttcatagGAGCGATCTGTATCGACCATCTTGTATCTTGTGTCACTTCAAGATCTTACC
EST: gi|33092036|gb|CF052030.1|CF052030
EST:     GCAAACTAGTCAGCTGCAGGTGCTAAGCTCTCATCACCAATCTGGAGGG                         GAGCGATCTGTATCGACCATCTTGTATCTTGTGTCACTTCAAGATCTTACC
genomic: GCAAACTAGTCAGCTGCAGGTGCTAAGCTCTCATCACCAATCTGGAGGGgtatgaagga ... tgtttcatagGAGCGATCTGTATCGACCATCTTGTATCTTGTGTCACTTCAAGATCTTACC
EST: gi|211323884|gb|FK953780.1|FK953780
EST:     GCAAACTAGTCAGCTGCAGGTGCTAAGCTCTCATCACCAATCTGGAGGG                         GAGCGATCTGTATCGACCATCTTGTATCTTGTGTCACTTCAAGATCTTACC
genomic: GCAAACTAGTCAGCTGCAGGTGCTAAGCTCTCATCACCAATCTGGAGGGgtatgaagga ... tgtttcatagGAGCGATCTGTATCGACCATCTTGTATCTTGTGTCACTTCAAGATCTTACC
EST: gi|78075393|gb|DV503827.1|DV503827
EST:     GGCAACCTAGTCAGCTGCAGGTGCTAAGCTCTCATCACCAATCTGGAGGG                         GAGCGATCTGTATCGACCATCTTGTATCTTGTGTCACTTCAAGATCTTACC
genomic: GGCAAACTAGTCAGCTGCAGGTGCTAAGCTCTCATCACCAATCTGGAGGGgtatgaagga ... tgtttcatagGAGCGATCTGTATCGACCATCTTGTATCTTGTGTCACTTCAAGATCTTACC


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

tcaaatgtgaaatcttttctcttcaccttcttattatttccttgctgtttcatagGAGCGATCTGTATCGACCATCTTGTATCTTGTGTCACTTCAAGATCTTACCAACTGCCCTTTTCGGGTTGTTGATGAGATAAATCAAG
            tcttttctcttcacct  CT-rich tract
                           ttcttattattt  TA-rich tract