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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gttggtgtactatatcagctagtcttgaacttgtaatgatagccatatgttatgataattgatttgtgaacatttgcttgctctcttttcgtgggatttatcctcaatttcagGCCTGTTTATGGGTTGATTTTTCTTTTCAAATGGCGTCCAGGAGAAAAGGATGATCGTGTCGTTATCAAAGATCCCAACCCTAACTTGTTTTTTGCTAGT

Basic information

species Glycine max
transcript GLYMA20G36170.1
intron # 4
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GLYMA20G36170.1 (Glycine max), 3'ss of exon 4
lower sequence: Vv04s0044g02040.t01 (Vitis vinifera), 3'ss of exon 4
gttggtgtactatatcagctagtcttgaacttgtaatgatagcc-atatgtt-atgataattgatttgtgaacatttgcttgctctcttttcgtgggatttatcctcaatttcagGCCTGTTTATGGGTTGATTTTTCTTTTCAAATGGCGTCCAGGAGAAAAGGATGATCGTGTCGTTATCAAAGATCCCAACCCTAACTTGTTTTTTGCTAGT
    ||    | |||   |||   ||  |||| |  || |  ||   |  |  |||   |||  |||||    || ||   |   | ||||| |   || |   |      ||||||| || ||||| ||||||||||||||||| ||||||||||| ||||||||||| ||| | || ||||| || || |||||||| || |||||||| |||
----gtcagttctatt--ctatctttttacttattttgctctcctgcacatagatggacatttttttgttggtatatgtgagaatttttttctttaaatcttctcc-----tcagGCCAGTATATGGATTGATTTTTCTTTTCAAGTGGCGTCCAGGGGAAAAGGATGACCGTCTTGTAATCAAGGACCCAAACCCTAATTTATTTTTTGCCAGT
















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|208253899|gb|GE056493.1|GE056493
EST:     GTTGAGGAACTGTATTCATTGGACCTTGACTCTCTCAACAGCCTTAG                         GCCTGTTTATGGGTTGATTTTTCTTTTCAAATGGCG
genomic: GTTGAGGAACTGTATTCATTGGACCTTGACTCTCTCAACAGCCTTAGgttggtgtac ... tcaatttcagGCCTGTTTATGGGTTGATTTTTCTTTTCAAATGGCG
EST: gi|19347146|gb|BM892026.1|BM892026
EST:     GTTGAGGAACTGTATTCATTGGACCTTGACTCTCTCAACAGCCTTAG                         GCCTGTTTATGGGTTGATTTTTCTTTTCAAATGGCGTCCAGGAGAAAAGGA
genomic: GTTGAGGAACTGTATTCATTGGACCTTGACTCTCTCAACAGCCTTAGgttggtgtac ... tcaatttcagGCCTGTTTATGGGTTGATTTTTCTTTTCAAATGGCGTCCAGGAGAAAAGGA
EST: gi|193491924|gb|FK457820.1|FK457820
EST:     GTTGAGGAACTGTATTCATTGGACCTTGACTCTCTCAACAGCCTTAG                         GCCTGTTTATGGGTTGATTTTTCTTTTCAAATGGCGT
genomic: GTTGAGGAACTGTATTCATTGGACCTTGACTCTCTCAACAGCCTTAGgttggtgtac ... tcaatttcagGCCTGTTTATGGGTTGATTTTTCTTTTCAAATGGCGT
EST: gi|151404722|gb|EV274536.1|EV274536
EST:     GTTGAGGAACTATATTCATTGGACCTTGACTCTCTCAACAGCCTTAG                         GCCTGTTTATGGGTTGATTTTTCTTTTCAAATGGCGTCCAGGAGAAAAGGA
genomic: GTTGAGGAACTGTATTCATTGGACCTTGACTCTCTCAACAGCCTTAGgttggtgtac ... tcaatttcagGCCTGTTTATGGGTTGATTTTTCTTTTCAAATGGCGTCCAGGAGAAAAGGA


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

ttgatttgtgaacatttgcttgctctcttttcgtgggatttatcctcaatttcagGCCTGTTTATGGGTTGATTTTTCTTTTCAAATGGCGTCCAGGAGAAAAGGATGATCGTGTCGTTATCAAAGATCCCAACCCTAACTTGTTTTTTGCTAGT
 aattgat  putative branch site (score: 4)
                                      tttatcctc  putative PPT
                                     atttat  TA-rich tract