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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gttgattgatttctttcgacatttatcatgttctatgtatcgttatgcttttatatcctactaggtctatcactactagtaatatatcactctgtgaacttagttgctgatatatttacgtttcagTGGTTGGTATTGAGATATGCGGTACTCAACTTGGAGGTTATTCAAGCAGCAATTCATTTAGCCAAACAGGAAGGCCTTCTTGTTTCCTTGGATTTGGCCA

Basic information

species Glycine max
transcript GLYMA04G03290.1
intron # 4
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GLYMA04G03290.1 (Glycine max), 3'ss of exon 4
lower sequence: Vv18s0001g12750.t01 (Vitis vinifera), 3'ss of exon 4
gttgattgatttctttcgacatttatcatgttctatgtatcgttatgcttttatatcctactaggtctatcactactagtaatatatcactctgtgaacttagttgctgatatatttac-gtttcagTGGTTGGTATTGAGATATGCGGTACTCAACTTGGAGGTTATTCAAGCAGCAATTCATTTAGCCAAACAGGAAGGCCTTCTTGTTTCCTTGGATTTGGCCA
                    | ||    ||||   | ||| | || |    ||  | ||   |    ||||| |   ||   |      || |  ||||||| ||||||||  || |   ||| |||||||||||| ||||||||| | ||   || ||||| |||||||| || |||||||   | ||||||||||| ||| |  |||| ||||||||||||||||
------------------gtaattgctctgtttggt-tattggta-gtgcatagcttctgaaaaacatatcatt--cagcggtt-----ctgttagaacttaattgctgatccatctgttgttacagTGGTTGGTAATGAGATATGGGATATATAATTTGGAAGTTATTCATGCTGCAATTCGGATGGCCAAACAGGAGGGCGTATTTGTATCCTTGGATTTGGCCA
















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|298196538|gb|HO041281.1|HO041281
EST:     GCACAAGAATTGGTGAAAGAGGATTTCAAGGGCTCCAAG                         TGGTTGGTATTGAGATATGCGGTACTCAACTTGGAGGTTATTCAAGCAGCA
genomic: GCACAAGAATTGGTGAAAGAGGATTTCAAGGGCTCCAAGgttgattgat ... tacgtttcagTGGTTGGTATTGAGATATGCGGTACTCAACTTGGAGGTTATTCAAGCAGCA
EST: gi|7795143|gb|AW780540.1|AW780540
EST:     GCACAAGAATTGGTGAAAGAGGATTTCAAGGGCTCCAAG                         TGGTTGGTATTGAGATATGCGGTACTCAACTTGGAGGTTATTCAAGCAGCA
genomic: GCACAAGAATTGGTGAAAGAGGATTTCAAGGGCTCCAAGgttgattgat ... tacgtttcagTGGTTGGTATTGAGATATGCGGTACTCAACTTGGAGGTTATTCAAGCAGCA
EST: gi|208192105|gb|GD990639.1|GD990639
EST:     GATTTCAAGGGCTCCAAG                         TGGTTGGTATTGAGATATGCGGTACTCAACTTGGAGGTTATTCAAGCAGAC
genomic: GATTTCAAGGGCTCCAAGgttgattgat ... tacgtttcagTGGTTGGTATTGAGATATGCGGTACTCAACTTGGAGGTTATTCAAGCAG-C
EST: gi|58016809|gb|CX703551.1|CX703551
EST:     GCACAAGAA-TGGTNGAAAGAGGATTTCAAGGGCTCCAAG                         TGGTTGGTATTGAGATATGCGGTACTCAACTTGGAGGTTATTCAAGCAGCA
genomic: GCACAAGAATTGGT-GAAAGAGGATTTCAAGGGCTCCAAGgttgattgat ... tacgtttcagTGGTTGGTATTGAGATATGCGGTACTCAACTTGGAGGTTATTCAAGCAGCA
EST: gi|192334033|gb|FK026190.1|FK026190
EST:     GCACAAGAATTGGTGAAAGAGGATTTCAAGGGCTCCAAG                         TGGTTGGTATTGAGATATGCGGTACTCAACTTGGAGGTTATTCAAGCAGCA
genomic: GCACAAGAATTGGTGAAAGAGGATTTCAAGGGCTCCAAGgttgattgat ... tacgtttcagTGGTTGGTATTGAGATATGCGGTACTCAACTTGGAGGTTATTCAAGCAGCA
EST: gi|192323065|gb|FK016316.1|FK016316
EST:     GCACAAGAATTGGTGAAAGAGGATTTCAAGGGCTCCAAG                         TGGTTGGTATTGAGATATGCGGTACTCAACTTGGAGGTTATTCAAGCAGCA
genomic: GCACAAGAATTGGTGAAAGAGGATTTCAAGGGCTCCAAGgttgattgat ... tacgtttcagTGGTTGGTATTGAGATATGCGGTACTCAACTTGGAGGTTATTCAAGCAGCA
EST: gi|192326921|gb|FK015148.1|FK015148
EST:     GCACAAGAATTGGTGAAAGAGGATTTCAAGGGCTCCAAG                         TGGTTGGTATTGAGATATGCGGTACTCAACTTGGAGGTTATTCAAGCAGCA
genomic: GCACAAGAATTGGTGAAAGAGGATTTCAAGGGCTCCAAGgttgattgat ... tacgtttcagTGGTTGGTATTGAGATATGCGGTACTCAACTTGGAGGTTATTCAAGCAGCA
EST: gi|41145774|gb|CK605985.1|CK605985
EST:     GCACAAGAATTGGTGAAAGAGGATTTCAAGGGCTCCAAG                         TGGTTGGTATTGAGATATGCGGTACTCAACTTGGAGGT-ATTCAAGCAGCA
genomic: GCACAAGAATTGGTGAAAGAGGATTTCAAGGGCTCCAAGgttgattgat ... tacgtttcagTGGTTGGTATTGAGATATGCGGTACTCAACTTGGAGGTTATTCAAGCAGCA
EST: gi|10848246|gb|BF070781.1|BF070781
EST:     TTGGTGAAAGAGGATTTCAAGGGCTCCAAG                         TGGTTGGTATTGAGATATGCGGTACTCAACTTGGAGGTTATTCAAGCAGCA
genomic: TTGGTGAAAGAGGATTTCAAGGGCTCCAAGgttgattgat ... tacgtttcagTGGTTGGTATTGAGATATGCGGTACTCAACTTGGAGGTTATTCAAGCAGCA


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

actactagtaatatatcactctgtgaacttagttgctgatatatttacgtttcagTGGTTGGTATTGAGATATGCGGTACTCAACTTGGAGGTTATTCAAGCAGCAATTCATTTAGCCAAACAGGAAGGCCTTCTTGTTTCCTTGGATTTGGCCA
                                 tgctgat  putative branch site (score: 3)
                                      atatatttacgttt  TA-rich tract