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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtatttccgttaatgccatcgtcgttttgctcctaaatcttataattcaattcatcgtgtttttgtttgtagtttttaggaattaattagttatgctttaaatttggtggcagATGGTTCTGCCTATTGCCGTTGAGGATGTTAAGCGAGAGGTCAAGATATTGAAAGCACTTACTGGCCATGAGAATGTGGTTCAGTTCTATAATGCTTTTG

Basic information

species Glycine max
transcript GLYMA16G23870.2
intron # 3
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GLYMA16G23870.1 (Glycine max), 3'ss of exon 3
lower sequence: LOC_Os02g03410.1 (Oryza sativa), 3'ss of exon 1
gtatttccgttaatgccatcgtcgttttgctcctaaatcttataattcaattcatcgtgtttttgtttgtagtttttaggaattaattagttatgctttaaatttggtggcagATGGTTCTGCCTATTGCCGTTGAGGATGTTAAGCGAGAGGTCAAGATATTGAAAGCACTTACTGGCCATGAGAATGTGGTTCAGTTCTATAATGCTTTTG
         |  ||||   |   || | | | ||   |  | |   || | ||  | |  | ||     ||  |  | | |    ||| |  |   || | ||||  |||||||||||||  ||| |||| || |||||||| ||| |||| || |||||  | |||| |||||  |||||||||||| | ||||| ||||| ||||| ||||
---------tggatgcatgctctgtatagatgctt--ttatgtttgtctactctacattatctttaggatatgtgattgaaggcgatttg--aattttgatattttatggcagATGGTTCGCCCTGTTGCTGTGGAGGATGTAAAGAGAGAAGTGAAGATTCTTAAAGAACTTAAAGGCCATGAGAATATTGTTCACTTCTACAATGCGTTTG

upper sequence: GLYMA16G23870.1 (Glycine max), 3'ss of exon 3
lower sequence: AT5G66210.2 (Arabidopsis thaliana), 3'ss of exon 2
gtatttccgttaatgccatcgtcgttttgctcctaaatcttataattcaattcatcgtgtttttgtttgtagtttttaggaattaattagttatgctttaaatttggtggcagATGGTTCTGCCTATTGCCGTTGAGGATGTTAAGCGAGAGGTCAAGATATTGAAAGCACTTACTGGCCATGAGAATGTGGTTCAGTTCTATAATGCTTTTG
  | | |  ||  |    || |   |||||  |    |  | |  ||    | |  |  |  |    | |  |||   |  | | || |   ||| |||      | |  ||||||||||| |||||||| ||||||||||| ||||| |||||  ||||  | |  || ||  ||||||| |||||||| ||||||||  | ||||| ||||
--agtgctctttctctgttctttcatttgcaacattgttctgtggtt----ttactgcatcctctgctctgctttgaggtcactcatca-ccatgtttt------gctcacagATGGTTCTTCCTATTGCTGTTGAGGATGTCAAGCGTGAGGTTCAGATTCTTATTGCTCTCTCTGGCCACGAGAATGTTGTTCAGTTTCACAATGCCTTTG

upper sequence: GLYMA16G23870.1 (Glycine max), 3'ss of exon 3
lower sequence: Vv04s0023g03420.t01 (Vitis vinifera), 3'ss of exon 1
gtatttccgttaatgccatcgtcgttttgctcctaaatcttataattcaattcatcgtgtttttgtttgtagtttttaggaattaattagttatgctttaaatttggtggcagATGGTTCTGCCTATTGCCGTTGAGGATGTTAAGCGAGAGGTCAAGATATTGAAAGCACTTACTGGCCATGAGAATGTGGTTCAGTTCTATAATGCTTTTG
      |    ||||   | ||    || ||  | ||| || | |  || |||   |  ||||||||  ||   | |    |  || | ||| |       ||||| ||||||||| |||| |||||||| ||||| || ||||||||||||||||| |||||  |||| ||||| |||||||||||||||||||||||| ||||||| ||||
---gggcaaagaatgtt-ttgtttagtttctgttcaattttttga--catttctatgcatttttgttgttatcatgtttacagcaaatggtttt-------atttgatggcagATGATTCTTCCTATTGCTGTTGAAGACGTTAAGCGAGAGGTCAAAATATTAGAAGCGCTTACCGGCCATGAGAATGTGGTTCAGTTCCATAATGCATTTG

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|209726971|gb|BW680288.1|BW680288
EST:     ACAAAGCCAATGGCGATCGCGTCGCCGTTAAGAGGCTTGAGAAGAGTAAG                         ATGGTTCTGCCTATTGCCGTTGAGGATGTTAAGCGAGAGGTCAAGATATTG
genomic: ACAAAGCCAATGGCGATCGCGTCGCCGTTAAGAGGCTTGAGAAGAGTAAGgtatttccgt ... ttggtggcagATGGTTCTGCCTATTGCCGTTGAGGATGTTAAGCGAGAGGTCAAGATATTG
EST: gi|207736879|gb|GD709496.1|GD709496
EST:     CGCCGTTAAGAGGCTTTGTAGAAGAGTAAG                         ATGGTTCTGCCTATTGCCGTTGAGGATGTTAAGCGAGAGGTCAAGATATTG
genomic: CGCCGTTAAGAGGC-TTG-AGAAGAGTAAGgtatttccgt ... ttggtggcagATGGTTCTGCCTATTGCCGTTGAGGATGTTAAGCGAGAGGTCAAGATATTG


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

gtttttgtttgtagtttttaggaattaattagttatgctttaaatttggtggcagATGGTTCTGCCTATTGCCGTTGAGGATGTTAAGCGAGAGGTCAAGATATTGAAAGCACTTACTGGCCATGAGAATGTGGTTCAGTTCTATAATGCTTTTG
                      aattaat  putative branch site (score: 3)
                      aattaattagttatgc  TA-rich tract