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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtaagtggatcaatggtttgcattattcaaaatctctcaatgcagtggtcctgattttttttcttcttttttaactgtgttactcagTGTTGTGGGATACACACTACTTTTAAGTTTGATTGAATACAAGACACTAGTCATGCGCGGTGATTTGGAAAGGGCCAATGAAATTCTACCATCAATTCCT

Basic information

species Glycine max
transcript GLYMA07G03890.2
intron # 5
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GLYMA07G03890.2 (Glycine max), 3'ss of exon 5
lower sequence: AT3G15980.2 (Arabidopsis thaliana), 3'ss of exon 16
gtaagtggatcaatggtttgcattattcaaaatctctcaatgcagtggtcctgattttttttcttcttt---tttaactgtgttactcagTGTTGTGGGATACACACTACTTTTAAGTTTGATTGAATACAAGACACTAGTCATGCGCGGTGATTTGGAAAGGGCCAATGAAATTCTACCATCAATTCCT
||| ||   |  ||  | ||  |||||  | |    |  ||   |    | | ||||  |  | | |||   |||  ||  |  |  ||||||  | ||||| || || ||  | ||  |||||||||||||||| || || ||||| || |||||||| || |||||| ||||| ||||  ||||||||
gtacgttcctttata-tatgt-ttatttgagactgttttatcttgcatacataatttgctaacatatttccctttttcttgggaatgcagTGTCATAGGATATACCCTGCTGCTTAGCCTGATTGAATACAAGACTCTTGTGATGCGAGGCGATTTGGATAGAGCCAATCAAATTTTACCTACAATTCCT

upper sequence: GLYMA07G03890.2 (Glycine max), 3'ss of exon 5
lower sequence: AT1G79990.1 (Arabidopsis thaliana), 3'ss of exon 20
gtaagtggatcaatggtttgcattattcaaaatctctcaatgcagtggtcctgattttttttcttcttttttaactgtgttact-cagTGTTGTGGGATACACACTACTTTTAAGTTTGATTGAATACAAGACACTAGTCATGCGCGGTGATTTGGAAAGGGCCAATGAAATTCTACCATCAATTCCT
|||||  |||   |   |   || |||      ||  |||||   ||    | | ||  |  ||||| | |  ||| | | | | ||||||| | ||||||||  ||||||||||||||||||| |||||||| || || ||||| || |||||||||  ||| |||||| |  |||| |||||||||
gtaagcagatgttttactgttatgattg-----ctaacaatgttttg----taacttactgacttctgtgtccactttatgattacagTGTTATTGGATACACTTTACTTTTAAGTTTGATTGAGTACAAGACTCTTGTGATGCGTGGAGATTTGGAACAGGCTAATGAAGTCTTACCTTCAATTCCT

upper sequence: GLYMA07G03890.2 (Glycine max), 3'ss of exon 5
lower sequence: Vv09s0002g04810.t01 (Vitis vinifera), 3'ss of exon 16
gtaagtggatcaatggtttgcatt---attcaaaatctctcaatgcagtggtcctgattttttttct---tcttttttaactgtgttactcagTGTTGTGGGATACACACTACTTTTAAGTTTGATTGAATACAAGACACTAGTCATGCGCGGTGATTTGGAAAGGGCCAATGAAATTCTACCATCAATTCCT
|| ||||||    |||     |     | |  |      |   || | || |      ||| ||  |   |   ||||  || |   |  ||||||  ||||||||||  ||||| | ||||||||||| |||||||| || || ||||| |||||  ||||| ||||||||||| || |||| |||||||| 
gtgagtggacttttggcagaaagggggagtggagggtggttgttgtattgctaacatctttattattaagttggtttttccttttcaatgcagTGTCATGGGATACACGTTACTTCTCAGTTTGATTGAGTACAAGACTCTTGTGATGCGTGGTGACCTGGAACGGGCCAATGAACTTTTACCTTCAATTCCC

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|254341657|gb|GR852794.1|GR852794
EST:     GGATATCTTGCCAGCCAAAGTAAGGTCTATTTGATAGACAAAGAATTCAA                         TGTTGTGGGATACACACTACTTTTAAGTTTGATTGAATACAAGACACTAGT
genomic: GGATATCTTGCCAGCCAAAGTAAGGTCTATTTGATAGACAAAGAATTCAAgtaagtggat ... tgttactcagTGTTGTGGGATACACACTACTTTTAAGTTTGATTGAATACAAGACACTAGT






















 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

tctctcaatgcagtggtcctgattttttttcttcttttttaactgtgttactcagTGTTGTGGGATACACACTACTTTTAAGTTTGATTGAATACAAGACACTAGTCATGCGCGGTGATTTGGAAAGGGCCAATGAAATTCTACCATCAATTCCT
                                    ttttaac  putative branch site (score: 2)
                      ttttttttcttctttt  CT-rich tract
                   tgattttttttcttct  TA-rich tract