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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

...ggaactaagtcaggatgtgagtgaaaaaaatcccaatgatcaagactatatttgtatgtatttgaatgcatcaagtgttaaatattattggtccatgcagGTCCAGTAGAGCTTGCTGCTGTAGGAGTTTCCATAGCTCTCTTCAATCAAGTATCAAGGATCGCAATATTCCCACTTGTCAGTGTCACAACTTCTTTTGT

Basic information

species Glycine max
transcript GLYMA13G41460.1
intron # 2
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GLYMA13G41460.1 (Glycine max), 3'ss of exon 2
lower sequence: LOC_Os10g13940.1 (Oryza sativa), 3'ss of exon 2
--ggaactaagtcaggatgtgagtgaaaaaa---atcccaatgatcaagactatatttgtatgtatttgaatgcatcaagtgttaaatattattggtccatgcagGTCCAGTAGAGCTTGCTGCTGTAGGAGTTTCCATAGCTCTCTTCAATCAAGTATCAAGGATCGCAATATTCCCACTTGTCAGTGTCACAACTTCTTTTGT
     |||   |    ||   |   ||   |   || |  ||  ||||| || |   |   | | | | ||    | || |  | | |  | ||| || |  |||| ||||| || ||||| ||||| || || || || ||  | || ||||||||||||||||| |||||||| || |||||||||||||| || || |||||
ttcttactgtattgtaatagaaaaaaagggacacattctgattttcaagtctttgacttattttgtctcaa---gttaatt--tgattccttttgttcaaaacagGCCCAGTTGAACTTGCAGCTGTTGGTGTATCTATTGCCGTGTTTAATCAAGTATCAAGGATTGCAATATTTCCCCTTGTCAGTGTCACGACATCATTTGT

upper sequence: GLYMA13G41460.1 (Glycine max), 3'ss of exon 2
lower sequence: AT1G51340.1 (Arabidopsis thaliana), 3'ss of exon 2
ggaactaagtcaggatgtgagtgaaaaaaatcccaat--gatcaagactatatt-tgtatgtatttgaatgcatcaagtgttaaatattattg-gtccatg-----cagGTCCAGTAGAGCTTGCTGCTGTAGGAGTTTCCATAGCTCTCTTCAATCAAGTATCAAGGATCGCAATATTCCCACTTGTCAGTGTCACAACTTCTTTTGT
        || |  |   ||   | ||   |    ||  | | |    ||| || |  ||| |  | | ||    || | |    | || ||| |   |||      |||||| |||||||||||||| || |||||||| || ||| | ||||| ||||| ||||| || || || ||||||||||| ||  |||||||||| |||||
--------gtaacaacaagaacaacaactcttttcatttgtttattgttattttataaatgaaaattattggtgtaattttcggttcttgttgtggtgatgactgatagGTCCTGTAGAGCTTGCTGCAGTTGGAGTTTCTATTGCTTTATTCAACCAAGTTTCAAGAATTGCTATTTTCCCACTTGTTAGCATCACAACTTCCTTTGT

upper sequence: GLYMA13G41460.1 (Glycine max), 3'ss of exon 2
lower sequence: Vv06s0004g02140.t01 (Vitis vinifera), 3'ss of exon 2
ggaactaagtcaggatgtgagtgaaaaaaatcccaatgatcaagactatatttgtatgtatttgaatgcatcaagtgttaaatattatt----ggtccatgcagGTCCAGTAGAGCTTGCTGCTGTAGGAGTTTCCATAGCTCTCTTCAATCAAGTATCAAGGATCGCAATATTCCCACTTGTCAGTGTCACAACTTCTTTTGT
     ||      |||| |  |   | |    |  ||  |   |  | | ||  ||  |    | |  ||    || ||  || || ||      |||||  ||||||||| || |||||||||||||||||||| || ||| | |||||||||||||||||||||||||||||||||||||||||||||||||| ||||| ||
---gatattctctgatgggttttggagactaactcattgttgtg-ttcttttgataattgaaaggactcacatggtattcgattttgtttcataatccatatagGTCCAGTGGAACTTGCTGCTGTAGGAGTTTCTATTGCTGTGTTCAATCAAGTATCAAGGATCGCAATATTCCCACTTGTCAGTGTCACAACCTCTTTCGT

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|192298303|gb|FG992093.1|FG992093
EST:     AGCTGATCCTATTGCTTCACTAGTTGACACAGCATTTATTGGCCAAATAG                         GTCCAGTAGAGCTTGCTGCTGTAGGAGTTTCCATAGCTCTCTTCAATCAAG
genomic: AGCTGATCCTATTGCTTCACTAGTTGACACAGCATTTATTGGCCAAATAGgtatgttctg ... gtccatgcagGTCCAGTAGAGCTTGCTGCTGTAGGAGTTTCCATAGCTCTCTTCAATCAAG
EST: gi|192310569|gb|FG999564.1|FG999564
EST:     AGCTGATCCTATTGCTTCACTAGTTGACACAGCATTTATTGGCCAAATAG                         GTCCAGTAGAGCTTGCTGCTGTAGGAGTTTCCATAGCTCTCTTCAATCAAG
genomic: AGCTGATCCTATTGCTTCACTAGTTGACACAGCATTTATTGGCCAAATAGgtatgttctg ... gtccatgcagGTCCAGTAGAGCTTGCTGCTGTAGGAGTTTCCATAGCTCTCTTCAATCAAG


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

ctatatttgtatgtatttgaatgcatcaagtgttaaatattattggtccatgcagGTCCAGTAGAGCTTGCTGCTGTAGGAGTTTCCATAGCTCTCTTCAATCAAGTATCAAGGATCGCAATATTCCCACTTGTCAGTGTCACAACTTCTTTTGT
                           aagtgttaaatattat  TA-rich tract