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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

TCTTGTGGAGAAAAGTTGTCATCAGATACACAAGGAAACCATGGTCCACAAAGCTGCTTTGAAGGTTTAAGAAGGTTCGAATCAGCAGTTACTGTCACAGgtaaagtatttgtcccttttccctctgttgctcctctcacattttcttattgccgccattttaagagggagttggggacacggaagggaagtctggtttatgaaaaatggtagaattgtgactcttcacatctcaagtaatgcttgtttctggtaaatgcag

Basic information

species Glycine max
transcript GLYMA08G15340.1
intron # 11
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GLYMA08G15340.1 (Glycine max), 5'ss of exon 11
lower sequence: Vv07s0031g01970.t01 (Vitis vinifera), 5'ss of exon 11
------TCTTGTGGAGAAAAGTTGTCATCAGATACACAAGGAAACCATGGTCCACAAAGCTGCTTTGAAGGTTTAAGAAGGTTCGAATCAGCAGTTACTGTCACAGgtaaagtatttgtcccttttccctctgttgctcctctcacattttcttattgccgccattttaagagggagttggggacacggaagggaagtctggtttatgaaaaatggtagaattgtgactcttcacatctcaagtaatgcttgtttctggtaaatgcag
      ||||||||| || ||||| ||||| || ||||||||||||||||| |||||||||||  |||| |||||| ||   |    | | ||  |||||           |||| | || || |  |        |||    || ||| ||||    || | ||   || |   |  ||      |        | |||  ||  || |                                                          
GCTTGATCTTGTGGAAAAGAGTTGCCATCAAATCCACAAGGAAACCATGGTTCACAAAGCTGCCCTGAAAGTTTAAAAATTATGATGTGACCAACTACTG-
















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|13477564|gb|BG507396.1|BG507396
EST:     AAGCTGCTTTGAAGGTTTAAGAAGGTTCGAATCAGCAGTTACTGTCACAG                         GGGCATCTCAATGATGTGATTTTGTACTGAAGTTGCCTTTTCAGGAAAATG
genomic: AAGCTGCTTTGAAGGTTTAAGAAGGTTCGAATCAGCAGTTACTGTCACAGgtaaagtatt ... gtaaatgcagGGGCATCTCAATGATGTGATTTTGTACTGAAGTTGCCTTTTCAGGAAAATG
EST: gi|58025009|gb|CX711750.1|CX711750
EST:     GGTTCGAATCAGCAGTTACTGTCACAG                         GGGCATCTCAATGATGTGATTTTGTACTGAAGTTGCCTTTTCAGGAAAATG
genomic: GGTTCGAATCAGCAGTTACTGTCACAGgtaaagtatt ... gtaaatgcagGGGCATCTCAATGATGTGATTTTGTACTGAAGTTGCCTTTTCAGGAAAATG
EST: gi|209699016|gb|BW656131.1|BW656131
EST:     AAGCTGCTTTGAAGGTTTAAGAAGGTTCGAATCAGCAGTTACTGTCACAG                         GGGCATCTCAATGATGTGATTTTGTACTGAAGTTGCCTTTTCAGGAAAATG
genomic: AAGCTGCTTTGAAGGTTTAAGAAGGTTCGAATCAGCAGTTACTGTCACAGgtaaagtatt ... gtaaatgcagGGGCATCTCAATGATGTGATTTTGTACTGAAGTTGCCTTTTCAGGAAAATG
EST: gi|6724924|gb|AW309323.1|AW309323
EST:     AAGCTGCTTTGAAGGTTTAAGAAGGTTCGAATCAGCAGTTACTGTCACAG                         GGGCATCTCAATGATGTGATTTTGCACTGAAGTTGCCTTTTCAGGAAAATG
genomic: AAGCTGCTTTGAAGGTTTAAGAAGGTTCGAATCAGCAGTTACTGTCACAGgtaaagtatt ... gtaaatgcagGGGCATCTCAATGATGTGATTTTGTACTGAAGTTGCCTTTTCAGGAAAATG
EST: gi|23064146|gb|BU578919.1|BU578919
EST:     AAGCTGCTTTGAAGGTTTAAGAAGGTTCGAATCAGCAGTTACTGTCACAG                         GGGCATCTCAATGATGTGATTTTGTACTGAAGTTGCCTTTTCAGGAAAATG
genomic: AAGCTGCTTTGAAGGTTTAAGAAGGTTCGAATCAGCAGTTACTGTCACAGgtaaagtatt ... gtaaatgcagGGGCATCTCAATGATGTGATTTTGTACTGAAGTTGCCTTTTCAGGAAAATG
EST: gi|16347022|gb|BI972617.1|BI972617
EST:     AAGCTGCTTTGAAGGTTTAAGAAGGTTCGAATCAGCAGTTACTGTCACAG                         GGGCATCTCAATGATGTGATTTTGTACTGAAGTTGCCTTTTCAGGAAAATG
genomic: AAGCTGCTTTGAAGGTTTAAGAAGGTTCGAATCAGCAGTTACTGTCACAGgtaaagtatt ... gtaaatgcagGGGCATCTCAATGATGTGATTTTGTACTGAAGTTGCCTTTTCAGGAAAATG
EST: gi|21994862|gb|BQ786390.1|BQ786390
EST:     AAGCTGCTTTGAAGGTTTAAGAAGGTTCGAATCAGCAGTTACTGTCACAG                         GGGCATCTCAATGATGTGATTTTGTACTGAAGTTGCCTTTTCAGGAAAATG
genomic: AAGCTGCTTTGAAGGTTTAAGAAGGTTCGAATCAGCAGTTACTGTCACAGgtaaagtatt ... gtaaatgcagGGGCATCTCAATGATGTGATTTTGTACTGAAGTTGCCTTTTCAGGAAAATG
EST: gi|15204177|gb|BI426945.1|BI426945
EST:     AAGCTGCTTTGAAGGTTTAAGAAGGTTCGAATCAGCAGTTACTGTCACAG                         GGGCATCTCAATGATGTGATTTTGTACTGAAGTTGCCTTTTCANGAAAATG
genomic: AAGCTGCTTTGAAGGTTTAAGAAGGTTCGAATCAGCAGTTACTGTCACAGgtaaagtatt ... gtaaatgcagGGGCATCTCAATGATGTGATTTTGTACTGAAGTTGCCTTTTCAGGAAAATG
EST: gi|13477418|gb|BG507306.1|BG507306
EST:     AAGCTGCTTTGAAGGTTTAAGAAGGTTCGAATCAGCAGTTACTGTCACAG                         GGGCATCTCAATGATGTGATTTTGTACTGAAGTTGCCTTTTCAGGAAAATG
genomic: AAGCTGCTTTGAAGGTTTAAGAAGGTTCGAATCAGCAGTTACTGTCACAGgtaaagtatt ... gtaaatgcagGGGCATCTCAATGATGTGATTTTGTACTGAAGTTGCCTTTTCAGGAAAATG
EST: gi|14990230|gb|BI315903.1|BI315903
EST:     AAGCTGCTTTGAAGGTTTAAGAAGGTTCGAATCAGCAGTTACTGTCACAG                         GGGCATCTCAATGATGTGATTTTGTACTGAAGTTGCCTTTTCAGGAAAATG
genomic: AAGCTGCTTTGAAGGTTTAAGAAGGTTCGAATCAGCAGTTACTGTCACAGgtaaagtatt ... gtaaatgcagGGGCATCTCAATGATGTGATTTTGTACTGAAGTTGCCTTTTCAGGAAAATG
EST: gi|10843673|gb|BF066947.1|BF066947
EST:     AAGCTGCTTTGAAGGTTTAAGAAGGTTCGAATCAGCAGTTACTGTCACAG                         GGGCATCTCAATGATGTGATTTTGTACTGAAGTTGCCTTTTCAGGAAAATG
genomic: AAGCTGCTTTGAAGGTTTAAGAAGGTTCGAATCAGCAGTTACTGTCACAGgtaaagtatt ... gtaaatgcagGGGCATCTCAATGATGTGATTTTGTACTGAAGTTGCCTTTTCAGGAAAATG

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
        10        20        30        40        50        60        70        80        90        100       110       120       130       140       150       160       170       180       190       200       210       220 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
TCTTGTGGAGAAAAGTTGTCATCAGATACACAAGGAAACCATGGTCCACAAAGCTGCTTTGAAGGTTTAAGAAGGTTCGAATCAGCAGTTACTGTCACAGgtaaagtatttgtcccttttccctctgttgctcctctcacattttcttattgccgccattttaagagggagttggggacacggaagggaagtctggtttatgaaaaatggtagaattgtgactcttcacatctcaagtaatgcttgtttctggtaaatgcag

- - - - - - - - - - - - - - - - - - - - - - - - - AAGCTG
- - - - - - - - - - - - - - - - - - - - - - - - -  AGCTGC
- - - - - - - - - - - - - - - - - - - - - - - - - - GCTGCT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - TTGAAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGAAG