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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

...tgatgtttttcattatattataaagtcagcttctcttttaataagtttatgttgccattaatgaatactattatataacattcttatggcacacatgcagTTTATGGTATTTGCATGCTCAGATTCGAGAGTTTGTCCATCTCATATTCTGGATTTCCAACCGGGTGAGGCCTTTATGGTCCGAAACATTGCCAACATGG

Basic information

species Glycine max
transcript GLYMA02G03990.1
intron # 5
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GLYMA02G03990.1 (Glycine max), 3'ss of exon 5
lower sequence: AT1G70410.1 (Arabidopsis thaliana), 3'ss of exon 3
-------tgatgtttttcattatattataaagtcagcttctcttttaataagtttatgttgccattaatgaatactattatataacattcttatggcacacatgcagTTTATGGTATTTGCATGCTCAGATTCGAGAGTTTGTCCATCTCATATTCTGGATTTCCAACCGGGTGAGGCCTTTATGGTCCGAAACATTGCCAACATGG
         |   || |    |    | |  |||  |||   | |||   |||| |||     |||    |||  | ||  ||    || || ||    |   ||||||| |||| ||||| ||||| |||||  |||||||||||||||| ||  || |||||||||| |||||||| ||| | ||| ||||||| ||||| ||||
ttagcaaaaacaattattggaaccaaagatggtccactttcttattatagagttaatga----atttgaaaatgatgttg-attttttttttttgat-tatg-gcagTTTCTGGTGTTTGCTTGCTCTGATTCTCGAGTTTGTCCATCTCACATCTTGAATTTCCAACCTGGTGAGGCTTTTGTTGTCAGAAACATAGCCAATATGG

upper sequence: GLYMA02G03990.1 (Glycine max), 3'ss of exon 5
lower sequence: Vv01s0127g00720.t01 (Vitis vinifera), 3'ss of exon 4
tgatgtttttcattatattataaagtcagcttctcttttaataagtttatgttgccattaatgaatactattatataacattcttatggcacacatgcagTTTATGGTATTTGCATGCTCAGATTCGAGAGTTTGTCCATCTCATATTCTGGATTTCCAACCGGGTGAGGCCTTTATGGTCCGAAACATTGCCAACATGG
| || |     | ||| ||  ||  | ||    |       | |    | | | |||||  |  |   ||||    | || ||  |      |  ||||||||||||| || || |||||||| ||  ||||||| || || ||||| |||||||| || || || ||||| |||||||||||||||||||| |||||||
taatataagggaatattttcgaacataagagaattgaggccttaacaaaaggttccatttgtataaggtattcctgaccagtcacagcatttatgtgcagTTTATGGTGTTCGCCTGCTCAGACTCTCGAGTTTGCCCTTCACATATCCTGGATTTTCAGCCAGGGGAGGCATTTATGGTCCGAAACATTGCGAACATGG
















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|192315191|gb|FK010015.1|FK010015
EST:     GAAAAATCCTGATCTATATGGCGAACTTGCCAAAGGCCAGAGCCCAAAG                         TTTATGGTATTTGCATGCTCAGATTCGAGAGTTTGTCCATCTCATATTCTG
genomic: GAAAAATCCTGATCTATATGGCGAACTTGCCAAAGGCCAGAGCCCAAAGgtcagccatg ... acacatgcagTTTATGGTATTTGCATGCTCAGATTCGAGAGTTTGTCCATCTCATATTCTG
EST: gi|298175511|gb|HO018222.1|HO018222
EST:     GAAAAATCCTGATCTATATGGCGAACTTGCCAAAGGCCAGAGCCCAAAG                         TTTATGGTATTTGCATGCTCAGATTCGAGAGTTTGTCCATCTCATATTCTG
genomic: GAAAAATCCTGATCTATATGGCGAACTTGCCAAAGGCCAGAGCCCAAAGgtcagccatg ... acacatgcagTTTATGGTATTTGCATGCTCAGATTCGAGAGTTTGTCCATCTCATATTCTG
EST: gi|298195403|gb|HO039234.1|HO039234
EST:     GAAAAATCCTGATCTATATGGCGAACTTGCCAAAGGCCAGAGCCCAAAG                         TTTATGGTATTTGCATGCTCAGATTCGAGAGTTTGTCCATCTCATATTCTG
genomic: GAAAAATCCTGATCTATATGGCGAACTTGCCAAAGGCCAGAGCCCAAAGgtcagccatg ... acacatgcagTTTATGGTATTTGCATGCTCAGATTCGAGAGTTTGTCCATCTCATATTCTG
EST: gi|20449478|gb|BQ253602.1|BQ253602
EST:     GAAAAATCCTGATCTATATGGCGAACTTGCCAAAGGCCAGAGCCCAAAG                         TTTATGGTATTTGCATGCTCAGATTCGAGAGTTTGTCCATCTCATATTCTG
genomic: GAAAAATCCTGATCTATATGGCGAACTTGCCAAAGGCCAGAGCCCAAAGgtcagccatg ... acacatgcagTTTATGGTATTTGCATGCTCAGATTCGAGAGTTTGTCCATCTCATATTCTG
EST: gi|23064138|gb|BU578911.1|BU578911
EST:     GAAAAATCCTGATCTATATGGCGAACTTGCCAAAGGCCAGAGCCCAAAG                         TTTATGGTATTTGCATGCTCAGATTCGAGAGTTTGTCCATCTCATATTCTG
genomic: GAAAAATCCTGATCTATATGGCGAACTTGCCAAAGGCCAGAGCCCAAAGgtcagccatg ... acacatgcagTTTATGGTATTTGCATGCTCAGATTCGAGAGTTTGTCCATCTCATATTCTG
EST: gi|13480785|gb|BG510128.1|BG510128
EST:     GAAAAATCCTGATCTATATGGCGAACTTGCCAAAGGCCAGAGCCCAAAG                         TTTATGGTATTTGCATGCTCAGATTCGAGAGTTTGTCCATCTCATATTCTG
genomic: GAAAAATCCTGATCTATATGGCGAACTTGCCAAAGGCCAGAGCCCAAAGgtcagccatg ... acacatgcagTTTATGGTATTTGCATGCTCAGATTCGAGAGTTTGTCCATCTCATATTCTG
EST: gi|192312289|gb|FK005293.1|FK005293
EST:     GAAAAATCCTGATCTATATGGCGAACTTGCCAAAGGCCAGAGCCCAAAG                         TTTATGGTATTTGCATGCTCAGATTCGAGAGTTTGTCCATCTCATATTCTG
genomic: GAAAAATCCTGATCTATATGGCGAACTTGCCAAAGGCCAGAGCCCAAAGgtcagccatg ... acacatgcagTTTATGGTATTTGCATGCTCAGATTCGAGAGTTTGTCCATCTCATATTCTG
EST: gi|20813541|gb|BQ298019.1|BQ298019
EST:     GAAAAATCCTGATCTATATGGCGAACTTGCCAAAGGCCAGAGCCCAAAG                         TTTATGGGATTTGCATGCTCAGATTCGAGAGGTTGTCCATCTCATATTCTG
genomic: GAAAAATCCTGATCTATATGGCGAACTTGCCAAAGGCCAGAGCCCAAAGgtcagccatg ... acacatgcagTTTATGGTATTTGCATGCTCAGATTCGAGAGTTTGTCCATCTCATATTCTG
EST: gi|20813542|gb|BQ298020.1|BQ298020
EST:     GAAAAATCCTGATCTATATGGCGAACTTGCCAAAGGCCAGAGCCCAAAG                         TTTATGGTATTTGCATGCTCAGATTCGAGAGTTTGTCCATCTCATATTCTG
genomic: GAAAAATCCTGATCTATATGGCGAACTTGCCAAAGGCCAGAGCCCAAAGgtcagccatg ... acacatgcagTTTATGGTATTTGCATGCTCAGATTCGAGAGTTTGTCCATCTCATATTCTG


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

tttatgttgccattaatgaatactattatataacattcttatggcacacatgcagTTTATGGTATTTGCATGCTCAGATTCGAGAGTTTGTCCATCTCATATTCTGGATTTCCAACCGGGTGAGGCCTTTATGGTCCGAAACATTGCCAACATGG
                           atataac  putative branch site (score: 3)
           attaatgaatactatt  TA-rich tract