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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

GAGATCTTGGTTGGTTCCCGCGTGGCAAGATGGCTGGTCCTTTCCAGGAGGTTGCTTTCAACACACCTGAGGGAACTGTTAGCGCACCATTCAAGTCCACgtatgcctttcacactgtttttcttccattgttcgcctattgaatgtatcatagcccatggcacaagtccttatcattgcactgctgcatttttcctgtg...

Basic information

species Zea mays
transcript GRMZM2G048277_T05
intron # 2
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GRMZM2G048277_T03 (Zea mays), 5'ss of exon 3
lower sequence: LOC_Os09g24540.1 (Oryza sativa), 5'ss of exon 3
GAGATCTTGGTTGGTTCCCGCGTGGCAAGATGGCTGGTCCTTTCCAGGAGGTTGCTTTCAACACACCTGAGGGAACTGTTAGCGCACCATTCAAGTCCACgtatgcctttcacactgtttttcttccattgttcgcctattgaatgtatcatagcccatggcacaagtccttatcattgcactgctgcatttttcctgtg---
|||||||||| |||||||||||||| || |||||||| ||||| ||||| ||||| || | |||||||| |||| ||  |||||||||||| ||||| |||||||  | | |   ||| || || || || |||  | | |    |    ||   | |||  |  ||  | ||| |    | ||||| || | | |  |    
GAGATCTTGGATGGTTCCCGCGTGGAAAAATGGCTGGCCCTTTTCAGGATGTTGCATTTAGCACACCTGTGGGAGCTACTAGCGCACCATTTAAGTCAACgtatgtgtataat--tgtattactaccctttttcctccaatcttcggtctattaacaatgcaagtagcgcctatgacatgagtgctg-atctgtgcgataccg

upper sequence: GRMZM2G048277_T03 (Zea mays), 5'ss of exon 3
lower sequence: GLYMA04G33180.2 (Glycine max), 5'ss of exon 4
GAGATCTTGGTTGGTTCCCGCGTGGCAAGATGGCTGGTCCTTTCCAGGAGGTTGCTTTCAACACACCTGAGGGAACTGTTAGCGCACCATTCAAGTCCACgtatgcctttcacactgtttttcttccattgttcgcctattgaatgtatcatagcccatggca--caagtc---cttatcattgcactgctgcatttttcctgtg-
|||| ||||| ||||| || || || ||||||||||| || || ||||| ||||| |||||||||||||  ||| ||  ||| || || ||||| || ||||||  || |  |||| ||    ||   ||    |  ||     |||  |    | | |  ||    || |   | |   | ||   ||||    |  |  ||   
GAGACCTTGGATGGTTTCCCCGAGGAAAGATGGCTGGGCCATTTCAGGATGTTGCCTTCAACACACCTGTTGGAGCTACTAGTGCTCCTTTCAAATCAACgtatttctcttgcactcttaacttttattttcctgattagcacctgtgccccttctcttctcaatttaggcacacctgctaatgt-ttgcttggatgatgatgcag

upper sequence: GRMZM2G048277_T03 (Zea mays), 5'ss of exon 3
lower sequence: GLYMA06G21080.1 (Glycine max), 5'ss of exon 4
GAGATCTTGGTTGGTTCCCGCGTGGCAAGATGGCTGGTCCTTTCCAGGAGGTTGCTTTCAACACACCTGAGGGAACTGTTAGCGCACCATTCAAGTCCACgtatgcctttcacactgtttttcttccattgttcgcctattgaatgtatcatagcccatg---gcacaagtc--cttatcattgcactgctgcatttttcctgtg---
|||| ||||| ||||| || || || ||||||||||| || || ||||| ||||| |||||||||||||  ||| ||  ||| || || ||||| || ||||||  || |   ||| ||    ||   ||    |  ||     |||  |    | | |        | |    | |   | ||      || ||  |     ||   
GAGACCTTGGATGGTTTCCCCGAGGAAAGATGGCTGGGCCATTTCAGGAAGTTGCCTTCAACACACCTGTTGGAGCTACTAGTGCTCCTTTCAAATCGACgtatttctcttgtactcttaacttttattttcctgattagcacctgtgccccttctcttcttcatttaggcagacctgctaatgtttgtttggatgatgatgatgcag

upper sequence: GRMZM2G048277_T03 (Zea mays), 5'ss of exon 3
lower sequence: Vv17s0000g06430.t01 (Vitis vinifera), 5'ss of exon 4
GAGATCTTGGTTGGTTCCCGCGTGGCAAGATGGCTGGTCCTTTCCAGGAGGTTGCTTTCAACACACCTGAGGGAACTGTTAGCGCACCATTCAAGTCCACgtatgcctttcacactgtttttcttccattgttcgcctattgaat---gtatcat--agcccatggcacaagtcc-----ttatcattgcactgctgcatttttcctgtg---------
| || ||||| ||||| ||||||||||||||||||||||| || ||||| ||||| |||| ||||  |   ||| |    || ||||||||||| || |||||||  ||  |   ||  |   ||  || | |||   | | |||   |||||        | | | || | ||       |   | |      |   ||||| | | ||         
GTGACCTTGGATGGTTTCCGCGTGGCAAGATGGCTGGTCCATTTCAGGATGTTGCCTTCAGCACAGTTATTGGAGCCACCAGTGCACCATTCAAATCAACgtatggattcaaatttgggtggtttttat-gctcgttgagttaattctgtatctctagattcttagtactactcgggtagcttcaactagctaaccttattttgcttttgatcatgcag

upper sequence: GRMZM2G048277_T03 (Zea mays), 5'ss of exon 3
lower sequence: PP1S217_91V6.1 (Physcomitrella patens), 5'ss of exon 4
GAGATCTTGGTTGGTTCCCGCGTGGCAAGATGGCTGGTCCTTTCCAGGAGGTTGCTTTCAACACACCTGAGGGAACTGTTAGCGCACCATTCAAGTCCACgta--------tgcctttcacactgtttttcttccattgttcgcctattgaatgtatcatagcccatggcacaagtccttatcattgcactgctgcatttttcctgtg----
|||| || || ||||| || ||||||||||||||||| |||||||||||||| || ||||| || |||   ||     | || || || || ||||| ||||         || | |   || |    || ||||| |  | | ||    || ||  || |      | | || |    |    |  ||    |  |  |  | |||     
GAGACCTCGGGTGGTTTCCTCGTGGCAAGATGGCTGGACCTTTCCAGGAGGTGGCCTTCAATACCCCTCCTGGTGTATTAAGTGCCCCTTTTAAGTCTACgtgagttcacctgtcctctccattcaagttgttccact-cttgtcttgcaaacgtgccaaaagtggagccgcatgcaaattctctaacagaaat-tacgtggcttgtaatag

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|32828122|gb|CD967800.1|CD967800
EST:     GTTGCTTTCAACACACCTGAGGGAACTGTTAGCGCACCATTCAAGTCCAC                         GCACGGGTATCACTTTATCCTCTGCGAAGGAAGGAAGAACTGATCTGGAAA
genomic: GTTGCTTTCAACACACCTGAGGGAACTGTTAGCGCACCATTCAAGTCCACgtatgccttt ... tcctgtgcagGCACGGGTATCACTTTATCCTCTGCGAAGGAAGGAAGAACTGATCTGGAAA
EST: gi|33096518|gb|CF056512.1|CF056512
EST:     GTTGCTTTCAACACACCTGAGGGAACTGTTAGCGCACCATTCAAGTCCAC                         GCACGGGCATCACTTTATCCTCTGCGAAGGAAGGAAGAACTGATCTGGAAA
genomic: GTTGCTTTCAACACACCTGAGGGAACTGTTAGCGCACCATTCAAGTCCACgtatgccttt ... tcctgtgcagGCACGGGTATCACTTTATCCTCTGCGAAGGAAGGAAGAACTGATCTGGAAA
EST: gi|18177877|gb|BM379087.1|BM379087
EST:     GTTGCTTTCAACACACCTGAGGGAACTGTTAGCGCACCATTCAAGTCCAC                         GCACGGGTATCACTTTATCCTCTGCGAAGGAAGGAAGAACTGATCTGGAAA
genomic: GTTGCTTTCAACACACCTGAGGGAACTGTTAGCGCACCATTCAAGTCCACgtatgccttt ... tcctgtgcagGCACGGGTATCACTTTATCCTCTGCGAAGGAAGGAAGAACTGATCTGGAAA
EST: gi|211061968|gb|FL461781.1|FL461781
EST:     GTTGCTTTCAACACACCTGAGGGAACTGTTAGCGCACCATTCAAGTCCAC                         GCACGGGTATCACTTTATCCTCTGCGAAGGAAGGAAGAACTGATCTGGAAA
genomic: GTTGCTTTCAACACACCTGAGGGAACTGTTAGCGCACCATTCAAGTCCACgtatgccttt ... tcctgtgcagGCACGGGTATCACTTTATCCTCTGCGAAGGAAGGAAGAACTGATCTGGAAA
EST: gi|51592806|gb|CV071952.1|CV071952
EST:     GTTGCTTTCAACACACCTGAGGGAACTGTTAGCGCACCATTCAAGTCCAC                         GCACGGGTATCACTTTATCCTCTGCGAAGGAAGGAAGAACTGATCTGGAAA
genomic: GTTGCTTTCAACACACCTGAGGGAACTGTTAGCGCACCATTCAAGTCCACgtatgccttt ... tcctgtgcagGCACGGGTATCACTTTATCCTCTGCGAAGGAAGGAAGAACTGATCTGGAAA
EST: gi|60337887|gb|DN204860.1|DN204860
EST:     GTTGCTTTCAACACACCTGAGGGAACTGTTAGCGCACCATTCAAGTCCAC                         GCACGGGTATCACTTTATCCTCTGCGAAGGAAGGAAGAACTGATCTGGAAA
genomic: GTTGCTTTCAACACACCTGAGGGAACTGTTAGCGCACCATTCAAGTCCACgtatgccttt ... tcctgtgcagGCACGGGTATCACTTTATCCTCTGCGAAGGAAGGAAGAACTGATCTGGAAA
EST: gi|32827994|gb|CD967672.1|CD967672
EST:     GTTGCTTTCAACACACCTGAGGGAACTGTTAGCGCACCATTCAAGTCCAC                         GCACGGGTATCACTTTATCCTCTGCGAAGGAAGGAAGAACTGATCTGGAAA
genomic: GTTGCTTTCAACACACCTGAGGGAACTGTTAGCGCACCATTCAAGTCCACgtatgccttt ... tcctgtgcagGCACGGGTATCACTTTATCCTCTGCGAAGGAAGGAAGAACTGATCTGGAAA
EST: gi|32823460|gb|CD963182.1|CD963182
EST:     GTTGCTTTCAACACACCTGAGGGAACTGTTAGCGCACCATTCAAGTCCAC                         GCACGGGTATCACTTTATCCTCTGCGAAGGAAGGAAGAACTGATCTGGAAA
genomic: GTTGCTTTCAACACACCTGAGGGAACTGTTAGCGCACCATTCAAGTCCACgtatgccttt ... tcctgtgcagGCACGGGTATCACTTTATCCTCTGCGAAGGAAGGAAGAACTGATCTGGAAA
EST: gi|76283286|gb|DV022854.1|DV022854
EST:     GTTGCTTTCAACACACCTGAGGGAACTGTTAGCGCACCATTCAAGTCCAC                         GCACGGGTATCACTTTATCCTCTGCGAAGGAAGGAAGAACTGATCTGGAAA
genomic: GTTGCTTTCAACACACCTGAGGGAACTGTTAGCGCACCATTCAAGTCCACgtatgccttt ... tcctgtgcagGCACGGGTATCACTTTATCCTCTGCGAAGGAAGGAAGAACTGATCTGGAAA
EST: gi|211106101|gb|FL459223.1|FL459223
EST:     GTTGCTTTCAACACACCTGAGGGAACTGTTAGCGCMCCATTCAAGTCCAC                         GCACGGGTATCACTTTATCCTCTGCGAAGGAAGGAAGAACTGATCTGGAAA
genomic: GTTGCTTTCAACACACCTGAGGGAACTGTTAGCGCACCATTCAAGTCCACgtatgccttt ... tcctgtgcagGCACGGGTATCACTTTATCCTCTGCGAAGGAAGGAAGAACTGATCTGGAAA
EST: gi|110524567|gb|EE028751.1|EE028751
EST:     GTTGCTTTCAACACACCTGAGGGAACTGTTAGCGCACCATTCAAGTCCAC                         GCACGGGTATCACTTTATCCTTTGCGAAGGAAGGAAGAACTGATCTGGAAA
genomic: GTTGCTTTCAACACACCTGAGGGAACTGTTAGCGCACCATTCAAGTCCACgtatgccttt ... tcctgtgcagGCACGGGTATCACTTTATCCTCTGCGAAGGAAGGAAGAACTGATCTGGAAA
EST: gi|67017951|gb|CO446700.1|CO446700
EST:     GTTGCTTTCAACACACCTGAGGGAACTGTTAGCGCACCATTCAAGTCCAC                         GCACGGGTATCACTTTATCCTCTGCGAAAGAAGGA-GAACTGATCTGGAAA
genomic: GTTGCTTTCAACACACCTGAGGGAACTGTTAGCGCACCATTCAAGTCCACgtatgccttt ... tcctgtgcagGCACGGGTATCACTTTATCCTCTGCGAAGGAAGGAAGAACTGATCTGGAAA
EST: gi|166410049|gb|EG271119.1|EG271119
EST:     GTTGCTTTCAACACACCTGAGGGAACTGTTAGCGCACCATTCAAGTCCAC                         GCACGGGTATCACTTTATC
genomic: GTTGCTTTCAACACACCTGAGGGAACTGTTAGCGCACCATTCAAGTCCACgtatgccttt ... tcctgtgcagGCACGGGTATCACTTTATC