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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gcaagttcctcatcctcactgttcactttatatactcctctattgacaggattctttcctcttatttaatatttcattattacactattctttaatatttgcggttgttgattcttttctcatgcattgcagATACCATATGGACCTTTGCAAAAATATCTTTGGAGAGGGCATCTTTCCTGATGTTGATGCAACTAATTTATACTACGGAGGCACAAAAATTGCTG

Basic information

species Glycine max
transcript GLYMA16G24270.1
intron # 9
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GLYMA16G24270.1 (Glycine max), 3'ss of exon 9
lower sequence: Vv04s0023g03020.t01 (Vitis vinifera), 3'ss of exon 8
-----------------------------gcaagttcctcatcctcactgttcactttatatactcc---tctattgacaggattctttcctcttatttaatatttcattat---tacactattctttaatatttgc--ggttgtt--gattcttttctcatgcattgcagATACCATATGGACCTTTGCAAAAATATCTTTGGAGAGGGCATCTTTCCTGATGTTGATGCAACTAATTTATACTACGGAGGCACAAAAATTGCTG
                              ||  |||  | | | ||   |    |||||||  |     |    || || |||| |||     |  | | |||||  || |   |||  || |||||  ||  ||   | || |    |||  || |||||   | |||| |||||| | ||||| ||||| ||| |||||||  | ||||||| |||||||||||||||||| ||| ||||||| |||||||||||||||||||
gtgcgtcttcgcacctctttacgtgtttcacagtttctacttacccaacttcttttttatattattaaaatgctatggcatgattatttgtgagttataagtatttggttttgcttactttactcttttgtacatgtatgattatacaaattggttgctcatatgtggcagGTACCATTTAGACCTATGCAAGAATGTCTTTGGCAATGGCATCTATCCTGATGTTGATGCAACAAATATATACTATGGAGGCACAAAAATTGCTG
















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|192307850|gb|FG999329.1|FG999329
EST:     CAGGTGGCTCCATCAAATGATAGTATACGCTCCTCAGAAATTGATGCAAA                         ATACCATATGGACCTTTGCAAAAATATCTTTGGAGAGGGCATCTTTCCTGA
genomic: CAGGTGGCTCCATCAAATGATAGTATACGCTCCTCAGAAATTGATGCAAAgcaagttcct ... tgcattgcagATACCATATGGACCTTTGCAAAAATATCTTTGGAGAGGGCATCTTTCCTGA
EST: gi|193413238|gb|FK377319.1|FK377319
EST:     CAGGTGGCTCCATCAAATGATAGTATACGCTCCTCAGAAATTGATGCAAA                         ATACCATATGGTACCTTTGCAAAAATATCTTTGGAGAGGGCATCTTTCCTG
genomic: CAGGTGGCTCCATCAAATGATAGTATACGCTCCTCAGAAATTGATGCAAAgcaagttcct ... tgcattgcagATACCATATGG-ACCTTTGCAAAAATATCTTTGGAGAGGGCATCTTTCCTG
EST: gi|192303245|gb|FG995581.1|FG995581
EST:     CAGGTGGCTCCATCAAATGATAGTATACGCTCCTCGGAAATTGATGCAAA                         ATACCATATGGACCTTTGCAAAAATATCTTTGGAGAGGGCATCTTTCCTGA
genomic: CAGGTGGCTCCATCAAATGATAGTATACGCTCCTCAGAAATTGATGCAAAgcaagttcct ... tgcattgcagATACCATATGGACCTTTGCAAAAATATCTTTGGAGAGGGCATCTTTCCTGA
EST: gi|208232033|gb|GE033900.1|GE033900
EST:     CAGGTGGCTCCATCAAATGATAGTATACGCTCCTCAGAAATTGATGCAAA                         ATACCATATGGACCTTTGCAAAAATATCTTTGGAGAGGGCATCTTT
genomic: CAGGTGGCTCCATCAAATGATAGTATACGCTCCTCAGAAATTGATGCAAAgcaagttcct ... tgcattgcagATACCATATGGACCTTTGCAAAAATATCTTTGGAGAGGGCATCTTT


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

tattacactattctttaatatttgcggttgttgattcttttctcatgcattgcagATACCATATGGACCTTTGCAAAAATATCTTTGGAGAGGGCATCTTTCCTGATGTTGATGCAACTAATTTATACTACGGAGGCACAAAAATTGCTG
                            tgttgat  putative branch site (score: 4)
                                  ttcttttctcatgc  CT-rich tract
      actattctttaatatt  TA-rich tract