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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtgatttctcgtgttatttttttatgtccatctttttgaataattttctttgcttgatgctttgactgagaaaaagttgataattatatctgatgtcagttcatctaactgttttttctttttactatttctggttttgccagTGGAAATTTGCATTTCTATCACTGGGCCGTCCTGAGTACCTTCAAGATTCTGACGTTGTATCCAGTCGTTTTCAG

Basic information

species Glycine max
transcript GLYMA13G16040.1
intron # 10
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GLYMA13G16040.1 (Glycine max), 3'ss of exon 10
lower sequence: Vv06s0009g00960.t01 (Vitis vinifera), 3'ss of exon 29
-------------------------------------------------------------gtgatttctcgtgttatttttttatgtccatctttttga-ataattttctttgcttgatgctttgactgagaaaaagttgataattatatctgatgtcagttcatctaa-ctgttttttctttttactatttctggttttgccagTGGAAATTTGCATTTCTATCACTGGGCCGTCCTGAGTACCTTCAAGATTCTGACGTTGTATCCAGTCGTTTTCAG
                                                                ||       ||   |  | |   | || | |  ||  ||||   | |||  ||  |  |||     ||||     |   |||    ||||| |||| ||     || ||   |||  || ||    || ||  |||| ||||||||  ||||| ||||| ||||| || || || |||||||||||||| |||||| |||| |||||||||||||||
gtatattttccttatgcatccactgtcatattcttctaatgaacactacttattacatggcaccataaaatcagtagatgatatgactacaccatggtggtataaacctttttcttt--tcattttttcaagaagcttcttgcaat----tctgacgtcattttgagcaatctacctttgtttgttgtctttact--ttttcccagTGGAGGTTTGCCTTTCTTTCACTAGGTCGCCCAGAGTACCTTCAAGACTCTGACATTGTCTCCAGTCGTTTTCAG

upper sequence: GLYMA13G16040.1 (Glycine max), 3'ss of exon 10
lower sequence: PP1S123_138V6.1 (Physcomitrella patens), 3'ss of exon 29
gtgatttctcgtgttatttttttatgtccatctttttgaataattttctttgcttgatgctttgactgagaaaaagttgataattatatctgatgtcagttcatctaactgttttttctttttactatttctggttttgccagTGGAAATTTGCATTTCTATCACTGGGCCGTCCTGAGTACCTTCAAGATTCTGACGTTGTATCCAGTCGTTTTCAG
           |||||  |  |  | | ||||  || || | | ||      ||   ||| ||  | |   ||   |||| ||         ||| | ||  || ||| |     |     ||   |||| |        |||||||| ||||| ||||| ||||||||||| |||||||| |||||||||   || |||||  |    |||||||||
--------gtatgttaactaat-gtctgcatcacttggacttactt------ctgtgtgcgtt--ccgttcaacttttgagaac--------atggcggt--atttaattacaactcgacgttgtcatttgt-------tcagTGGAAGTTTGCGTTTCTTTCACTGGGCCGACCTGAGTATCTTCAAGATGGAGATGTTGTTGCTGCCCGTTTTCAG
















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|58015534|gb|CX702276.1|CX702276
EST:     AAGTGCGAATACAAAAGAAACTTCAAGTTCNTGATGATGAATTTTGCAAG                         TGGAAATTTGCATTTCTATCACTGGGCCGTCNTGAGTACCTTCAAGATTCT
genomic: AAGTGCGAATACAAAAGAAACTTCAAGTTCCTGATGATGAATTTTGCAAGgtgatttctc ... gttttgccagTGGAAATTTGCATTTCTATCACTGGGCCGTCCTGAGTACCTTCAAGATTCT
EST: gi|7692406|gb|AW760513.1|AW760513
EST:     AAGTGCGAATACATAAGAGACTTCAAGTTCCTGATGATGAATTTTGCAAG                         TGGAAATTTGCATTTCTA
genomic: AAGTGCGAATACAAAAGAAACTTCAAGTTCCTGATGATGAATTTTGCAAGgtgatttctc ... gttttgccagTGGAAATTTGCATTTCTA
EST: gi|58015738|gb|CX702480.1|CX702480
EST:     AAGTGCGAATACAAAAGAAACTTCAAGTTCCTGATGATGAATTTTGCAAG                         TGGAAATTTGCATTTCTATCACTGGGCCGTCCTGAGTACCTTCAAGATTCT
genomic: AAGTGCGAATACAAAAGAAACTTCAAGTTCCTGATGATGAATTTTGCAAGgtgatttctc ... gttttgccagTGGAAATTTGCATTTCTATCACTGGGCCGTCCTGAGTACCTTCAAGATTCT
EST: gi|57573985|gb|CX546960.1|CX546960
EST:     AAGTGCGAATACAAAAGAAACTTCAAGTTCCTGATGATGAATTTTGCAAG                         TGGAAATTTGCATTTCTATCACTGGGCCGTCCTGAGTACCTTCAAGATTCT
genomic: AAGTGCGAATACAAAAGAAACTTCAAGTTCCTGATGATGAATTTTGCAAGgtgatttctc ... gttttgccagTGGAAATTTGCATTTCTATCACTGGGCCGTCCTGAGTACCTTCAAGATTCT


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

tctgatgtcagttcatctaactgttttttctttttactatttctggttttgccagTGGAAATTTGCATTTCTATCACTGGGCCGTCCTGAGTACCTTCAAGATTCTGACGTTGTATCCAGTCGTTTTCAG
              atctaac  putative branch site (score: 2)
                       ttttttctttttacta  putative PPT
                     tgttttttctttttac  TA-rich tract