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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtatgcttctatgcaatggttacttctttatacttattggatgttatatttagggtctttaatgttacctggtttctatttgtgccagATTGCTGCAAGATTTTTGAAGCCAGATAAGAAAACTGCTGACCTTGTTGGAAATACAAAAATGAAGGCCAGCATCAATGTTAGGCATATTGTTCTTCCTT

Basic information

species Glycine max
transcript GLYMA20G29060.1
intron # 5
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GLYMA20G29060.1 (Glycine max), 3'ss of exon 5
lower sequence: Vv16s0022g02110.t01 (Vitis vinifera), 3'ss of exon 5
----------------------------------------------------------------------------------gtatgcttctatgcaatggttacttctttatactta-ttggatgttatatttagggtctt---taatgttacctggtttctatttgtgccagATTGCTGCAAGATTTTTGAAGCCAGATAAGAAAACTGCTGACCTTGTTGGAAATACAAAAATGAAGGCCAGCATCAATGTTAGGCATATTGTTCTTCCTT
                                                                                   |||  |||  |    |  |   ||  | | | ||| ||  || || |  |  |  ||||   | |||||  |  || | |  |  ||||||||| || | || ||| | || |||     |||||| || |||||||| || |||  ||||||||||||||| |  ||||||||||||||||||||||| |
gtacattttctttccatgattgtcctattagaataatttctattttgagttaagagtacaaataaataacaatttcttaattttatatttcatttatttcatgtgtttgtaacaattacttctatattttcgtctgcttcttatgtgatgttgtcctgtgttttgtattgccagATTTCTTCTAGGTTTCTTAAACCAACCCTGAAAACAGCAGACCTTGTAGGTAATGAAAAAATGAAGGCCAGTACTAATGTTAGGCATATTGTTCTTCCCT
















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|193531396|gb|FK483278.1|FK483278
EST:     AAGTTCAGACACTTCTTTTCAGTGCTACTTTGCCAGACTGGGTTAAGCAA                         ATTGCTGCAAGATTTTTGAAGCCAGATAAGAAAACTG
genomic: AAGTTCAGACACTTCTTTTCAGTGCTACTTTGCCAGACTGGGTTAAGCAAgtatgcttct ... tttgtgccagATTGCTGCAAGATTTTTGAAGCCAGATAAGAAAACTG
EST: gi|254316012|gb|GR825821.1|GR825821
EST:     AAGTTCAGACACTTCTTTTCAGTGCTACTTTGCCAGACTGGGTTAAGCAA                         ATTGCTGCAAGATTTTTGAAGCCAGATAAGAAAACTGCTGACCTTGTTGGA
genomic: AAGTTCAGACACTTCTTTTCAGTGCTACTTTGCCAGACTGGGTTAAGCAAgtatgcttct ... tttgtgccagATTGCTGCAAGATTTTTGAAGCCAGATAAGAAAACTGCTGACCTTGTTGGA
EST: gi|254314573|gb|GR829566.1|GR829566
EST:     AAGTTCAGACACTTCTTTTCAGTGCTACTTTGCCAGACTGGGTTAAGCAA                         ATTGCTGCAAGATTTTTGAAGCCAGATAAGAAAACTGCTGACCTTGTTGGA
genomic: AAGTTCAGACACTTCTTTTCAGTGCTACTTTGCCAGACTGGGTTAAGCAAgtatgcttct ... tttgtgccagATTGCTGCAAGATTTTTGAAGCCAGATAAGAAAACTGCTGACCTTGTTGGA
EST: gi|207803896|gb|GD773625.1|GD773625
EST:     AAGTTCAGACACTTCTTTTCAGTGCTACTTTGCCAGACTGGGTTAAGCAA                         ATTGCTTTAAAATTTTTGAAGCCAGATAAGAAAACTGCTGACCTTGTTGGA
genomic: AAGTTCAGACACTTCTTTTCAGTGCTACTTTGCCAGACTGGGTTAAGCAAgtatgcttct ... tttgtgccagATTGCTGCAAGATTTTTGAAGCCAGATAAGAAAACTGCTGACCTTGTTGGA
EST: gi|207709886|gb|GD689688.1|GD689688
EST:     AAGTTCAGACACTTCTTTTCAGTGCTACTTTGCCAGACTGGGTTAAGCAA                         ATTGCTGCAAGTATTTTTGAAGCCAGATAAGAAAACTGCTGACCTTGTTGG
genomic: AAGTTCAGACACTTCTTTTCAGTGCTACTTTGCCAGACTGGGTTAAGCAAgtatgcttct ... tttgtgccagATTGCTGCAAG-ATTTTTGAAGCCAGATAAGAAAACTGCTGACCTTGTTGG


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

ttattggatgttatatttagggtctttaatgttacctggtttctatttgtgccagATTGCTGCAAGATTTTTGAAGCCAGATAAGAAAACTGCTGACCTTGTTGGAAATACAAAAATGAAGGCCAGCATCAATGTTAGGCATATTGTTCTTCCTT
                       ctttaat  putative branch site (score: 4)
                                       tttctattt  putative PPT
       atgttatattta  TA-rich tract