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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtataatttctattataagattgatttttctttttgcttgaggcctctttcttctatacttaacctttttcatttcattttttatattaccactgaccattttttttataattatgtgaatttggtagATATGATATAATAGTAGATGCAACAGATAATGCTCCTACCCGATACTTGATCAGTGATTGCTGTGTGGTTCTAGGAAAG

Basic information

species Glycine max
transcript GLYMA14G02260.1
intron # 5
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GLYMA14G02410.1 (Glycine max), 3'ss of exon 4
lower sequence: LOC_Os02g32460.1 (Oryza sativa), 3'ss of exon 5
gtataatttctattataagattgatttttctttttgcttgaggcctctttcttctatacttaacctttttcatttcattttttatattaccactgaccattttttttataattatgtgaatttggtagATATGATATAATAGTAGATGCAACAGATAATGCTCCTACCCGATACTTGATCAGTGATTGCTGTGTGGTTCTAGGAAAG
                                | ||||   |     ||   | |   ||| |     |  |||     ||||| | |   |||||   ||||||||  | | |||      |   |||||||||||| | |||||||| || || |||  |||||| |||||| |||||||||| || |||||| | ||    |||
-------------------------------gtatgctatcgaaacattaagtgt---cttgagacaatatattgtgccttttagagt-ttactgaat-ttttttttccactgatggatcaatcacagATATGATATAGTTGTAGATGCCACGGACAATCTTCCTACTCGATACATGATCAGTGACTGTTGTGTGTTGCTGAATAAG

upper sequence: GLYMA14G02410.1 (Glycine max), 3'ss of exon 4
lower sequence: AT5G55130.1 (Arabidopsis thaliana), 3'ss of exon 5
gtataatttctattataagattgatttttctttttgcttgaggcctctttcttctatacttaacctttttcatttcattttt-tatattaccactgaccattttttttataattatgtgaatttggtagATATGATATAATAGTAGATGCAACAGATAATGCTCCTACCCGATACTTGATCAGTGATTGCTGTGTGGTTCTAGGAAAG
          |||  | ||||         | |||    || | |||  | |||| ||     | || ||  | || |     || |  |        |  | |||   ||| | | | ||||    ||||||||||| ||||| ||||| || |||||| |||| | ||| ||| ||||||||||||| |||||  |  ||||||||
---------gtatccttagatatgcaaacatgttt-taggatgtctcagttttctgtat----ctttattagtctcctcaaagtaaagcattgaaaggctgtgtttccgtaactgtataaatt----agATATGATATCATAGTCGATGCGACTGATAATCCTCCAAGCCGTTACATGATCAGTGATTGTTGTGTCTTGTTAGGAAAG
















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|208077362|gb|GD877861.1|GD877861
EST:     GAACATGAAGAAGCTTTGCAGACTTCCAACGCTTTGGAAATTCTCAGCAA                         ATATGATATAATAGTAGATGCAACAGATAATGCTCCTACCCGATACTTGAT
genomic: GAACATGAAGAAGCTTTGCAGACTTCCAACGCTTTGGAAATTCTCAGCAAgtataatttc ... aatttggtagATATGATATAATAGTAGATGCAACAGATAATGCTCCTACCCGATACTTGAT
EST: gi|192312358|gb|FK005362.1|FK005362
EST:     GAACATGAAGAAGCTTTGCAGACTTCCAACGCTTTGGAAATTCTCAGCAA                         ATATGATATAATAGTAGATGCAACAGATAATGCTCCTACCCGATACTTGAT
genomic: GAACATGAAGAAGCTTTGCAGACTTCCAACGCTTTGGAAATTCTCAGCAAgtataatttc ... aatttggtagATATGATATAATAGTAGATGCAACAGATAATGCTCCTACCCGATACTTGAT
EST: gi|208156442|gb|GD957676.1|GD957676
EST:     GAACATGAAGAAGCTTTGCAGACTTCCAACGCTTTGGAAATTCTCAGCAA                         ATATGATATAATAGTAGATGCAACAGATAATGCTCCTACCCGATACTTGAT
genomic: GAACATGAAGAAGCTTTGCAGACTTCCAACGCTTTGGAAATTCTCAGCAAgtataatttc ... aatttggtagATATGATATAATAGTAGATGCAACAGATAATGCTCCTACCCGATACTTGAT
EST: gi|5688245|gb|AI941260.1|AI941260
EST:     GAACATGAAGAAGCTTTGCAGACTTCCAACGCTGTGGAAATTCTCAGCAA                         ATATGATATAATAGTAGATGCAACAGATAATGCTCCTACCCGATACTTGAT
genomic: GAACATGAAGAAGCTTTGCAGACTTCCAACGCTTTGGAAATTCTCAGCAAgtataatttc ... aatttggtagATATGATATAATAGTAGATGCAACAGATAATGCTCCTACCCGATACTTGAT
EST: gi|192312357|gb|FK005361.1|FK005361
EST:     GAACATGAAGAAGCTTTGCAGACTTCCAACGCTTTGGAAATTCTCAGCAA                         ATATGATATAATAGTAGATGCAACAGATAATGCTCCTACCCGATACTTGAT
genomic: GAACATGAAGAAGCTTTGCAGACTTCCAACGCTTTGGAAATTCTCAGCAAgtataatttc ... aatttggtagATATGATATAATAGTAGATGCAACAGATAATGCTCCTACCCGATACTTGAT


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

ttcattttttatattaccactgaccattttttttataattatgtgaatttggtagATATGATATAATAGTAGATGCAACAGATAATGCTCCTACCCGATACTTGATCAGTGATTGCTGTGTGGTTCTAGGAAAG
                 cactgac  putative branch site (score: 2)
                         attttttttataatta  TA-rich tract