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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

...gtttataagagaagatatgttaagttttatgtccttcctcaaaattgttttcattgattttttctggtgcttactttagtgaatttatgttgtatcccagAGCATGCTTTACTTGGATCCCAGCAAAAGAATTACTGCTAGGAGCGCTCTTGAGCATGAATACTTCAAAGACATTAAATTTGTACCCTGATTTCTTATCT

Basic information

species Glycine max
transcript GLYMA05G25320.1
intron # 6
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GLYMA05G25320.1 (Glycine max), 3'ss of exon 6
lower sequence: Vv15s0045g00310.t01 (Vitis vinifera), 3'ss of exon 8
gtttataagagaagatatgttaagttttatgtccttcctcaaaattgttttcattgattt-tttctggtgcttactttagtgaattt--atgttgtatcccagAGCATGCTTTACTTGGATCCCAGCAAAAGAATTACTGCTAGGAGCGCTCTTGAGCATGAATACTTCAAAGACATTAAATTTGTACCCTGATTTCTTATCT
  | | ||        || ||||     || |  ||  | | || |  |      | ||| ||| |        |||     |||||  ||||| | | |||||  ||||| | | |||||||||||| |||||| ||||| ||||| |||||||||||||| ||||||||||| |||   ||||| |||||||| | | | |
--tcacaaatatgtggatcttaataggcatataattt-taagaactagtgcagcagttttgtttataccatccgcttatacaaatttgtatgttattttccagAAAATGCTGTGCCTGGATCCCAGCAGAAGAATAACTGCCAGGAGTGCTCTTGAGCATGAGTACTTCAAAGATATTGGGTTTGTGCCCTGATTGCATGTGT
















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|19054013|gb|BM732680.1|BM732680
EST:     TGAAAAATGTGGTTCCAAATCTTGAGCCAGCTGGTCTTGATCTTCTTTCT                         AGCATGCTTTACTTGGATCCCAGCAAAAGAATTACTGCTAGGAGCGCTCTT
genomic: TGAAAAATGTGGTTCCAAATCTTGAGCCAGCTGGTCTTGATCTTCTTTCTgtaagtggaa ... tgtatcccagAGCATGCTTTACTTGGATCCCAGCAAAAGAATTACTGCTAGGAGCGCTCTT
EST: gi|209697835|gb|BW663952.1|BW663952
EST:     TGAAAAATGTGGTTCCAAATCTTGAGCCAGCTGGTCTTGATCTTCTTTCT                         AGCATGCTTTACTTGGATCCCAGCAAAAGAATTACTGCTAGGAGCGCTCTT
genomic: TGAAAAATGTGGTTCCAAATCTTGAGCCAGCTGGTCTTGATCTTCTTTCTgtaagtggaa ... tgtatcccagAGCATGCTTTACTTGGATCCCAGCAAAAGAATTACTGCTAGGAGCGCTCTT
EST: gi|6455727|gb|AW186410.1|AW186410
EST:     TGAAAAATGTGGTTCCAAATCTTGAGCCAGCTGGTCTTGATCTTCTTTCT                         AGCATGCTTTACTTGGATCCCAGCAAAAGAATTACTGCTAGGAGCGCTCTT
genomic: TGAAAAATGTGGTTCCAAATCTTGAGCCAGCTGGTCTTGATCTTCTTTCTgtaagtggaa ... tgtatcccagAGCATGCTTTACTTGGATCCCAGCAAAAGAATTACTGCTAGGAGCGCTCTT
EST: gi|254326866|gb|GR836475.1|GR836475
EST:     TGAAAAATGTGGTTCCAAATCTTGAGCCAGCTGGTCTTGATCTTCTTTCT                         AGCATGCTTTACTTGGATCCCAGCAAAAGAATTACTGCTAGGAGCGCTCTT
genomic: TGAAAAATGTGGTTCCAAATCTTGAGCCAGCTGGTCTTGATCTTCTTTCTgtaagtggaa ... tgtatcccagAGCATGCTTTACTTGGATCCCAGCAAAAGAATTACTGCTAGGAGCGCTCTT
EST: gi|254343632|gb|GR857388.1|GR857388
EST:     TGAAAAATGTGGTTCCAAATCTTGAGCCAGCTGGTCTTGATCTTCTTTCT                         AGCATGCTTTACTTGGATCCCAGCAAAAGAATTACTGCTAGGAGCGCTCTT
genomic: TGAAAAATGTGGTTCCAAATCTTGAGCCAGCTGGTCTTGATCTTCTTTCTgtaagtggaa ... tgtatcccagAGCATGCTTTACTTGGATCCCAGCAAAAGAATTACTGCTAGGAGCGCTCTT
EST: gi|51335099|gb|CO978965.1|CO978965
EST:     TGAAAAATGTGGTTCCAAATCTTGAGCCAGCTGGTCTTGATCTTCTTTCT                         AGCATGCTTTACTTGGATCCCAGCAAAAGAATTACTGCTAGGAGCGCTCTT
genomic: TGAAAAATGTGGTTCCAAATCTTGAGCCAGCTGGTCTTGATCTTCTTTCTgtaagtggaa ... tgtatcccagAGCATGCTTTACTTGGATCCCAGCAAAAGAATTACTGCTAGGAGCGCTCTT
EST: gi|13481254|gb|BG510597.1|BG510597
EST:     TGAAAAATGTGGTTCCAAATCTTGAGCCAGCTGGTCTTGATCTTCTTTCT                         AGCATGCTTTACTTGGATCCCAGCAAAAGAATTACTGCTAGGAGCGCTCTT
genomic: TGAAAAATGTGGTTCCAAATCTTGAGCCAGCTGGTCTTGATCTTCTTTCTgtaagtggaa ... tgtatcccagAGCATGCTTTACTTGGATCCCAGCAAAAGAATTACTGCTAGGAGCGCTCTT


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

tgttttcattgattttttctggtgcttactttagtgaatttatgttgtatcccagAGCATGCTTTACTTGGATCCCAGCAAAAGAATTACTGCTAGGAGCGCTCTTGAGCATGAATACTTCAAAGACATTAAATTTGTACCCTGATTTCTTATCT
                      tgcttac  putative branch site (score: 2)
                             tttagtgaatttat  TA-rich tract