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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gttgggtgctaaatactttcaggtaaatattttatgccaattccactacatggatgctttaacgttgttgctttccattttccctctttagGATGTTTCAAGGGAATTTAAGAGTACACTTGAGCGGGAGATTGGTCTTGATGACAATTTAAGTCCTACCCAGAACACATACAATTCCAATGTACGTAATA

Basic information

species Glycine max
transcript GLYMA20G30120.1
intron # 3
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GLYMA20G30120.1 (Glycine max), 3'ss of exon 3
lower sequence: Vv16s0050g00800.t01 (Vitis vinifera), 3'ss of exon 3
gttgggtgctaaatactttcaggtaaa--tattttatgccaattccactacatggatgctt--taacgttgttgctttccattttccctctt-tagGATGTTTCAAGGGAATTTAAGAGTACACTTGAGCGGGAGATTGGTCTTGATGACAATTTAAGTCCTACCCAGAACACATACAATTCCAATGTACGTAATA
  | | | || |  ||||| || | ||  ||  || | |  |   |  |  | | |||| |  |     |  | ||  |  ||||||||||| ||||| ||||||| |||||||||||| || |||||   |||||||||| ||||||| | || |||| | |  ||  | |||||||   |||    |  |||  
-gtagatacttacaactttgagtttaacctacattgttctcaccacctttgaggaatgcctgatgctactagttctaccatttttccctcttgtagGAAGTTTCAAAGGAATTTAAGAGCACCCTTGAAAAGGAGATTGGTTTTGATGAGATTTCAAGTTCAATACAAGATACATACAGGCCCAGAACAACTAACC
















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|192311913|gb|FK004222.1|FK004222
EST:     ATCTGGGAAAAACATTGCGTGCATTTCAACCCACCATTAGAGAGCTTCAG                         GATGTTTCAAGGGAATTTAAGAGTACACTTGAGCGGGAGATTGGTCTTGAT
genomic: ATCTGGGAAAAACATTGCGTGCATTTCAACCCACCATTAGAGAGCTTCAGgttgggtgct ... ccctctttagGATGTTTCAAGGGAATTTAAGAGTACACTTGAGCGGGAGATTGGTCTTGAT
EST: gi|15204816|gb|BI427584.1|BI427584
EST:     ATCTGGGAAAAACATTGCGTGCATTTCAACCCACCATTAGAGAGCTTCAG                         GATGTTTCAAGGGAATTTAAGAGTACACTTGAGCGGGAGATTGGTCTTGAT
genomic: ATCTGGGAAAAACATTGCGTGCATTTCAACCCACCATTAGAGAGCTTCAGgttgggtgct ... ccctctttagGATGTTTCAAGGGAATTTAAGAGTACACTTGAGCGGGAGATTGGTCTTGAT
EST: gi|151402645|gb|EV272458.1|EV272458
EST:     ATCTGGGAAAAACATTGCGTGCATTTCAACCCACCATTAGAGAGCTTCAG                         GATGTTTCAAGGGAATTTAAGAGTACACTTGAGCGGGAGATTGGTCTTGAT
genomic: ATCTGGGAAAAACATTGCGTGCATTTCAACCCACCATTAGAGAGCTTCAGgttgggtgct ... ccctctttagGATGTTTCAAGGGAATTTAAGAGTACACTTGAGCGGGAGATTGGTCTTGAT
EST: gi|192334065|gb|FK026222.1|FK026222
EST:     ATCTGGGAAAAACATTGCGTGCATTTCAACCCACCATTAGAGAGCTTCAG                         GATGTTTCAAGGGAATTTAAGAGTACACTTGAGCGGGAGATTGGTCTTGAT
genomic: ATCTGGGAAAAACATTGCGTGCATTTCAACCCACCATTAGAGAGCTTCAGgttgggtgct ... ccctctttagGATGTTTCAAGGGAATTTAAGAGTACACTTGAGCGGGAGATTGGTCTTGAT
EST: gi|19348858|gb|BM893390.1|BM893390
EST:     ATCTGGGAAAAACATTGCGTGCATTTCAACCCACCATTAGAGAGCTTCAG                         GATGTTTCAAGGGAATTTAAGAGTACACTTGAGCGGGAGATTGGTCTTGAT
genomic: ATCTGGGAAAAACATTGCGTGCATTTCAACCCACCATTAGAGAGCTTCAGgttgggtgct ... ccctctttagGATGTTTCAAGGGAATTTAAGAGTACACTTGAGCGGGAGATTGGTCTTGAT
EST: gi|192311912|gb|FK004221.1|FK004221
EST:     ATCTGGGAAAAACATTGCGTGCATTTCAACCCACCATTAGAGAGCTTCAG                         GATGTTTCAAGGGAATTTAAGAGTACACTTGAGCGGGAGATTGGTCTTGAT
genomic: ATCTGGGAAAAACATTGCGTGCATTTCAACCCACCATTAGAGAGCTTCAGgttgggtgct ... ccctctttagGATGTTTCAAGGGAATTTAAGAGTACACTTGAGCGGGAGATTGGTCTTGAT
EST: gi|192334066|gb|FK026223.1|FK026223
EST:     ATCTGGGAAAAACATTGCGTGCATTTCAACCCACCATTAGAGAGCTTCAG                         GATGTTTCAAGGGAATTTAAGAGTACACTTGAGCGGGAGATTGGTCTTGAT
genomic: ATCTGGGAAAAACATTGCGTGCATTTCAACCCACCATTAGAGAGCTTCAGgttgggtgct ... ccctctttagGATGTTTCAAGGGAATTTAAGAGTACACTTGAGCGGGAGATTGGTCTTGAT
EST: gi|298179287|gb|HO027758.1|HO027758
EST:     ATCTGGGAAAAACATTGCGTGCATTTCAACCCACCATTAGAGAGCTTCAG                         GATGTTTCAAGGGAATTTAAGAGTACACTTGAGCGGGAGATTGGTCTTGAT
genomic: ATCTGGGAAAAACATTGCGTGCATTTCAACCCACCATTAGAGAGCTTCAGgttgggtgct ... ccctctttagGATGTTTCAAGGGAATTTAAGAGTACACTTGAGCGGGAGATTGGTCTTGAT


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

ccaattccactacatggatgctttaacgttgttgctttccattttccctctttagGATGTTTCAAGGGAATTTAAGAGTACACTTGAGCGGGAGATTGGTCTTGATGACAATTTAAGTCCTACCCAGAACACATACAATTCCAATGTACGTAATA
                    ctttaac  putative branch site (score: 3)
                          cgttgttgctttccat  CT-rich tract
                     tttaa  TA-rich tract