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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

CTTCCTGGTGTTGATCCCAATGATCCATCTGTTAAAGATTTGCTGGCATCATTGCACAGCCAGGGAGAGgtatgttcttttttgggttccagtgaaggtctcagtattgtgatgcaatgaaattcatgttgcctctagactatagcattgttcagcttcaccttgacta...

Basic information

species Zea mays
transcript GRMZM2G147671_T02
intron # 9
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GRMZM2G147671_T02 (Zea mays), 5'ss of exon 9
lower sequence: LOC_Os03g13970.1 (Oryza sativa), 5'ss of exon 9
CTTCCTGGTGTTGATCCCAATGATCCATCTGTTAAAGATTTGCTGGCATCATTGCACAGCCAGGGAGAGgtatgttcttttttgggttccagtgaaggtctcagtattg-tgatgcaatgaaattcatgttgcctctagactatagcattgttcagcttcaccttgacta-
|| ||||||||||| |||||||| || ||||| |||||||||||||||||||||||  | ||||| |||||||| | || | |   | |   |  |    | ||| |   | |  |   |||  ||    | |   ||    ||   | | |  |   || |    ||   
CTCCCTGGTGTTGACCCCAATGACCCCTCTGTGAAAGATTTGCTGGCATCATTGCATGGGCAGGGCGAGgtatgcttttctcta--tccttttagattgttgagtttcaatcaaacttagaaggtctgagtacagttatgacattagactttctattgtccctcgtacctt

upper sequence: GRMZM2G147671_T02 (Zea mays), 5'ss of exon 9
lower sequence: GLYMA02G05250.2 (Glycine max), 5'ss of exon 9
CTTCCTGGTGTTGATCCCAATGATCCATCTGTTAAAGATTTGCTGGCATCATTGCACAGCCAGGGAGAGgtatgttctttttt--gggttccagtga--aggtctcagtattgtgatgcaatgaaattcatgttgcctctagactatagcattgttcagcttcaccttgacta-
|||||||| ||||| || ||||| |||||||| |||||||||||||| ||  |||| |  |||   |||||| ||| | ||||  ||     | | |   ||| | |  |   |  |  | ||||  |     ||     |   | |  ||    ||   ||    ||||  | 
CTTCCTGGGGTTGACCCAAATGACCCATCTGTCAAAGATTTGCTGGCTTCCATGCAAAATCAGTCTGAGgtaggttttcttttatggaaaataatcattgggtttgacaaaaatcttttattgaagatttcaatgggggcatgtt-tgacaaaaatcttttt----ttgaagat

upper sequence: GRMZM2G147671_T02 (Zea mays), 5'ss of exon 9
lower sequence: GLYMA16G23590.1 (Glycine max), 5'ss of exon 9
CTTCCTGGTGTTGATCCCAATGATCCATCTGTTAAAGATTTGCTGGCATCATTGCACAGCCAGGGAGAGgtatgttcttttttgggttccagtgaaggtctcagtattgtgatgcaatgaaattcatgttgcctctagactatagcattgttcagcttcaccttgacta---
|||||||| ||||| || |||||||||||||| |||||||||||||| || ||||| |  |||   |||||| ||| | ||||  |    |    |    |     |||  | | |         || || |     |   |||      || |||||||||| || ||   
CTTCCTGGGGTTGACCCAAATGATCCATCTGTCAAAGATTTGCTGGCTTCCTTGCAAAATCAGTCTGAGgtaggttttcttttatg---gaaaataatcattgagtttgaaaagaatctcttagaatatttcacagggggcatatttaaatttagcttcacctagattagcc

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|211525285|gb|FK977008.1|FK977008
EST:     GGCATCATTGCACAGCCAGGGAGAG                         CAAGAGAAGAAGGAAGACAAGTCAGACAAAACAGAAGACGAGAAGAACTGA
genomic: GGCATCATTGCACAGCCAGGGAGAGgtatgttctt ... tcttaaacagCAAGAGAAGAAGGAAGACAAGTCAGACAAAACAGAAGACGAGAAGAACTGA
EST: gi|211525286|gb|FK977009.1|FK977009
EST:     ATGATCCATCTGTTAAAGATTTGCTGGCATCATTGCACAGCCAGGGAGAG                         CAAGAGAAGAAGGAAGACAAGTCAGACAAAACAGAAGACGAGAAGAACTGA
genomic: ATGATCCATCTGTTAAAGATTTGCTGGCATCATTGCACAGCCAGGGAGAGgtatgttctt ... tcttaaacagCAAGAGAAGAAGGAAGACAAGTCAGACAAAACAGAAGACGAGAAGAACTGA
EST: gi|15053742|gb|BI359287.1|BI359287
EST:     ATGATCCATCTGTTAAAGATTTGCTGGCATCATTGCACAGCCAGGGAGAG                         CAAGAGAAGAAGGAAGACAAGTCAGACAAAACAGAAGACGAGAAGAACTGA
genomic: ATGATCCATCTGTTAAAGATTTGCTGGCATCATTGCACAGCCAGGGAGAGgtatgttctt ... tcttaaacagCAAGAGAAGAAGGAAGACAAGTCAGACAAAACAGAAGACGAGAAGAACTGA
EST: gi|12968898|gb|BG265739.1|BG265739
EST:     TTTGCTGGCATCATTGCACAGCCAGGGAGAG                         CAAGAGAAGAAGGAAGACAAGTCAGACAAAACAGAAGACGAGAAGAACTGA
genomic: TTTGCTGGCATCATTGCACAGCCAGGGAGAGgtatgttctt ... tcttaaacagCAAGAGAAGAAGGAAGACAAGTCAGACAAAACAGAAGACGAGAAGAACTGA
EST: gi|15053743|gb|BI359288.1|BI359288
EST:     ATGATCCATCTGTTAAAGATTTGCTGGCATCATTGCACAGCCAGGGAGAG                         CAAGAGAAGAAGGAAGACAAGTCAGACAAAACAGAAGACGAGAAGAACTGA
genomic: ATGATCCATCTGTTAAAGATTTGCTGGCATCATTGCACAGCCAGGGAGAGgtatgttctt ... tcttaaacagCAAGAGAAGAAGGAAGACAAGTCAGACAAAACAGAAGACGAGAAGAACTGA
EST: gi|32937218|gb|CF042037.1|CF042037
EST:     ATGATCCATCTGTTAAAGATTTGCTGGCATCATTGCACAGCCGGGGAGAG                         CAAGAGAAGAAGGAAGACAAGTCAGACAAAACAGAAGACGAGAAGAACTGA
genomic: ATGATCCATCTGTTAAAGATTTGCTGGCATCATTGCACAGCCAGGGAGAGgtatgttctt ... tcttaaacagCAAGAGAAGAAGGAAGACAAGTCAGACAAAACAGAAGACGAGAAGAACTGA
EST: gi|28984428|gb|BQ539033.2|BQ539033
EST:     ATGATCCATCTGTTAAAGATTTGCTGGCATCATTGCACAGCCAGGGAGAG                         CAAGAGAAGAAGGAAGACAAGTCAGACAAAACAGAAGACGAGAAGAACTGA
genomic: ATGATCCATCTGTTAAAGATTTGCTGGCATCATTGCACAGCCAGGGAGAGgtatgttctt ... tcttaaacagCAAGAGAAGAAGGAAGACAAGTCAGACAAAACAGAAGACGAGAAGAACTGA
EST: gi|9733091|gb|BE511843.1|BE511843
EST:     GATCCATCTGTTAAAGATTTGCTGGCATCNATTGCACAGCNCAGGGAGAG                         CAAGAGAAGAAGGAAGACAAGTCAGACAAAACAGAAGACGAGAAGAACTG
genomic: GATCCATCTGTTAAAGATTTGCTGGCATC-ATTGCACAGC-CAGGGAGAGgtatgttctt ... tcttaaacagCAAGAGAAGAAGGAAGACAAGTCAGACAAAACAGAAGACGAGAAGAACTG
EST: gi|5770174|gb|AI973348.1|AI973348
EST:     ATGATCCATCTGTTAAAGATTTGCTGGCATCATTGCACAGCCAGGGAGAG                         CAAGAGAAGAAGGAAGACAAGTCAGACAAAACAGAAGACGAGAAGAACTGA
genomic: ATGATCCATCTGTTAAAGATTTGCTGGCATCATTGCACAGCCAGGGAGAGgtatgttctt ... tcttaaacagCAAGAGAAGAAGGAAGACAAGTCAGACAAAACAGAAGACGAGAAGAACTGA
EST: gi|37382952|gb|CF628448.1|CF628448
EST:     ATGATCCATCTGTTAAAGATTTGCTGGCATCATTGCACAGCCAGGGAGAG                         CAAGAGAAGAAGGAAGACAAGTCAGACAAAACAGAAGACGAGAAGAACTGA
genomic: ATGATCCATCTGTTAAAGATTTGCTGGCATCATTGCACAGCCAGGGAGAGgtatgttctt ... tcttaaacagCAAGAGAAGAAGGAAGACAAGTCAGACAAAACAGAAGACGAGAAGAACTGA
EST: gi|15053278|gb|BI358823.1|BI358823
EST:     ATGATCCATCTGTTAAAGATTTGCTGGCATCATTGCACAGCCAGGGAGAG                         CAAGAGAAGAAGGAAGACAAGTCAGACAAAACAGAAGACGAGAAGAACTGA
genomic: ATGATCCATCTGTTAAAGATTTGCTGGCATCATTGCACAGCCAGGGAGAGgtatgttctt ... tcttaaacagCAAGAGAAGAAGGAAGACAAGTCAGACAAAACAGAAGACGAGAAGAACTGA
EST: gi|60354976|gb|DN221949.1|DN221949
EST:     ATGATCCATCTGTTAAAGATTTGCTGGCATCATTGCACAGCCAGGGAGAG                         CAAGAGAAGAAGGAAGACAAGTCAGACAAAACAGAAGACGAGAAGAACTGA
genomic: ATGATCCATCTGTTAAAGATTTGCTGGCATCATTGCACAGCCAGGGAGAGgtatgttctt ... tcttaaacagCAAGAGAAGAAGGAAGACAAGTCAGACAAAACAGAAGACGAGAAGAACTGA
EST: gi|166613681|gb|EG279092.1|EG279092
EST:     TCATTGCACAGCCAGGGAGAG                         CAAGAGAAGAAGGAAGACAAGTCAGACAAAACAGAAGACGAGAAGAACTGA
genomic: TCATTGCACAGCCAGGGAGAGgtatgttctt ... tcttaaacagCAAGAGAAGAAGGAAGACAAGTCAGACAAAACAGAAGACGAGAAGAACTGA
EST: gi|4609687|gb|AI600526.1|AI600526
EST:     ATGATCCATCTGTTAAAGATTTGCTGGCATCATTGCACAGCCAGGGAGAG                         CAAGAGAAGAAGGAAGACAAGTCAGACAAAACAGAAGACGAGAAGAACTGA
genomic: ATGATCCATCTGTTAAAGATTTGCTGGCATCATTGCACAGCCAGGGAGAGgtatgttctt ... tcttaaacagCAAGAGAAGAAGGAAGACAAGTCAGACAAAACAGAAGACGAGAAGAACTGA