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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtactcctttatttcattaattagttttttatttttattttatgttagcatttaattggtttcacatcagattgttatatatagatttttaacaaactaatatttgtagGTTGGTAAGGGGTCACGAGGTGATGTTACCATATTGCCTACTCTAGTTGTCAATAATAGACAGTATCGAG

Basic information

species Glycine max
transcript GLYMA10G40340.1
intron # 3
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GLYMA10G40340.1 (Glycine max), 3'ss of exon 3
lower sequence: AT2G14740.2 (Arabidopsis thaliana), 3'ss of exon 3
gtactcctttatttcattaattagttttttatttttattttatgttagcatttaattggtttcacatcagattgttatatatagattt--ttaacaaactaatatttgtagGTTGGTAAGGGGTCACGAGGTGATGTTACCATATTGCCTACTCTAGTTGTCAATAATAGACAGTATCGAG
         ||  | |||| | |  |||| || | ||||||      || ||| || | | | |  |  || |  |   |     | |  || ||| | ||   | |||||||||| ||||| ||| | |||||||||||||||||||||||  | |||||||| || |||||||| ||||
--------gtaaat-attagtca--ttttcatctgtattttcctccggcgtttcatagttataatctttgaataatccgttcgtttgtgattgacatattatattatgtagGTTGGCAAGGGTTCAAGGGGTGATGTTACCATATTGCCTACCTTGGTTGTCAACAACAGACAGTACCGAG

upper sequence: GLYMA10G40340.1 (Glycine max), 3'ss of exon 3
lower sequence: AT2G14720.2 (Arabidopsis thaliana), 3'ss of exon 4
gtactcctttatttcattaattagttttttatttttattttatgttagcatttaattggtttcacatcagattgttatatatagatttttaacaaactaatatttgtagGTTGGTAAGGGGTCACGAGGTGATGTTACCATATTGCCTACTCTAGTTGTCAATAATAGACAGTATCGAG
                       ||   ||| | ||     |  |  | |||| | |  | |      |   |||| |   |      || ||| | ||   | |||||||||| |||||  || | |||||||||||||||||||||||  |||||||||| || |||||||| ||||
-----------------------gtaaattactgtt--cccacatctgaatttgactcttctgtacgtaacctgttttgggt------ttgacatattatattatgtagGTTGGCAAGGGTACAAGGGGTGATGTTACCATATTGCCTACCTTAGTTGTCAACAACAGACAGTACCGAG
















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|193416072|gb|FK376678.1|FK376678
EST:     CAAATGCTGATTCTGAAAATCCTGTTTCGAAAGAAGAGCAAGATGCCCAA                         GTTGGTAAGGGGTCACGAGGTGATGTTACCATATTGCCTACTCTAGTTGTC
genomic: CAAATGCTGATTCTGAAAATCCTGTTTTGAAAGAAGAGCAAGATGCCCAAgtactccttt ... atatttgtagGTTGGTAAGGGGTCACGAGGTGATGTTACCATATTGCCTACTCTAGTTGTC
EST: gi|193526099|gb|FK481548.1|FK481548
EST:     CAAATGCTGATTCTGAAAATCCTGTTTTGAAAGAAGAGCAAGATGCCCAA                         GTTGGTAAGGGGTCACGAGGTGATGTTACCATATTGCCTACTCTAGTTGTC
genomic: CAAATGCTGATTCTGAAAATCCTGTTTTGAAAGAAGAGCAAGATGCCCAAgtactccttt ... atatttgtagGTTGGTAAGGGGTCACGAGGTGATGTTACCATATTGCCTACTCTAGTTGTC
EST: gi|207815823|gb|GD787028.1|GD787028
EST:     CAAATGCTGATTCTGAGAATCCTGTTTTGAAAGAAGAGCAAGATGCCCAA                         GTTGGTAAGGGGTCACGAGGTGATGTTACCATATTGCCTACTCTAGTTGTC
genomic: CAAATGCTGATTCTGAAAATCCTGTTTTGAAAGAAGAGCAAGATGCCCAAgtactccttt ... atatttgtagGTTGGTAAGGGGTCACGAGGTGATGTTACCATATTGCCTACTCTAGTTGTC
EST: gi|193374451|gb|FK340327.1|FK340327
EST:     CAAATGCTGATTCTGAAAATCCTGTTTCGAAAGAAGAGCAAGATGCCCAA                         GTTGGTAAGGGGTCACGAGGTGATGTTACCATATTGCCTACTCTAGTTGTC
genomic: CAAATGCTGATTCTGAAAATCCTGTTTTGAAAGAAGAGCAAGATGCCCAAgtactccttt ... atatttgtagGTTGGTAAGGGGTCACGAGGTGATGTTACCATATTGCCTACTCTAGTTGTC


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

attggtttcacatcagattgttatatatagatttttaacaaactaatatttgtagGTTGGTAAGGGGTCACGAGGTGATGTTACCATATTGCCTACTCTAGTTGTCAATAATAGACAGTATCGAG
                                        aactaat  putative branch site (score: 2)
                attgttatatatagat  TA-rich tract