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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

TTAAAGAAAGGACCATGGACTCCAGAGGAAGATCAGAAGCTCTTAGCTTATATTGAAGAACATGGCCATGGAAGCTGGCGTGCTTTGCCAGCAAAAGCTGgtactatataatatatatacacttttttttgttgtgttagtttgatgtatattgtgtatatgttgtgagtaataatgtgtaagtacacatatatgaaatt...

Basic information

species Glycine max
transcript GLYMA19G02890.1
intron # 2
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GLYMA19G02890.1 (Glycine max), 5'ss of exon 2
lower sequence: PP1S106_216V6.1 (Physcomitrella patens), 5'ss of exon 1
TTAAAGAAAGGACCATGGACTCCAGAGGAAGATCAGAAGCTCTTAGCTTATATTGAAGAACATGGCCATGGAAGCTGGCGTGCTTTGCCAGCAAAAGCTGgta--ctatataatatatatacactt------ttttttgttgtgttagtttgatgtatattgtgtatatgttgtgagtaataatgtgtaagtacacatatatgaaatt
 | ||||| || || ||||| |||||||| |||||||||||  | || || ||| | |||||||| |||||||||||||| |   | || |  ||||| ||||  ||   |  |   |  | |  |      |||||| |||  | ||     |  ||   ||   |         ||  |    || |  | ||  || |       
GTGAAGAAGGGGCCGTGGACGCCAGAGGAGGATCAGAAGCTGGTGGCATACATTCAGGAACATGGTCATGGAAGCTGGCGGGAGCTCCCTGAGAAAGCCGgtaagctgcgtcctgcttcgaaaagtgacgaattttttcttgcatgagaccattacattgcgttcttcgaccccaggttttgg-atggatttgcagttaga-------
















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|209713541|gb|BW679304.1|BW679304
EST:     TATTGAAGAACATGGCCATGGAAGCTGGCGTGCTTTGCCAGCAAAAGCTG                         GACTTCAGAGGTGTGGCAAGAGTTGCAGACTATGATGGACCAATTATCTTA
genomic: TATTGAAGAACATGGCCATGGAAGCTGGCGTGCTTTGCCAGCAAAAGCTGgtactatata ... atatatatagGACTTCAGAGGTGTGGCAAGAGTTGCAGACTAAGATGGACCAATTATCTTA
EST: gi|192301728|gb|FG997642.1|FG997642
EST:     TATTGAAGAACATGGCCATGGAAGCTGGCGTGCTTTGCCAGCAAAAGCTG                         GACTTCAGAGGTGTGGCAAGAGTTGCAGACTAAGATGGACCAATTATCTTA
genomic: TATTGAAGAACATGGCCATGGAAGCTGGCGTGCTTTGCCAGCAAAAGCTGgtactatata ... atatatatagGACTTCAGAGGTGTGGCAAGAGTTGCAGACTAAGATGGACCAATTATCTTA
EST: gi|213605902|gb|DB968640.1|DB968640
EST:     TATTGAAGAACATGGCCATGGAAGCTGGCGTGCTTTGCCAGCAAAAGCTG                         GACTTCAGAGGTGTGGCAAGAGTTGCAGACTATGATGGACCAATTATCTTA
genomic: TATTGAAGAACATGGCCATGGAAGCTGGCGTGCTTTGCCAGCAAAAGCTGgtactatata ... atatatatagGACTTCAGAGGTGTGGCAAGAGTTGCAGACTAAGATGGACCAATTATCTTA

Putative cis-regulatory sequences

 atgc intron ATGC exonic elements by Pertea et al.
 ATGC exon atgc putative intronic elements
 ATGC putative exonic elements identified for retained introns
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---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
TTAAAGAAAGGACCATGGACTCCAGAGGAAGATCAGAAGCTCTTAGCTTATATTGAAGAACATGGCCATGGAAGCTGGCGTGCTTTGCCAGCAAAAGCTGgtactatataatatatatacacttttttttgttgtgttagtttgatgtatattgtgtatatgttgtgagtaataatgtgtaagtacacatatatgaaatt

- - - - - - - - - - - - - - - - - - - - - - - - - - TTGAAG
- - - - - - - - - - - - - - - - - - - - - - - - - -  TGAAGA
- - - - - - - - - - - - - - - - - - - - - - - - - - -  AAGAAC
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - CATGGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TGGAAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  AAGCTG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGCTG