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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

...agtaggataaggcttttgatgctattgttgtttgtacctagttgatttctatatcaacatattgggtgtcatatgcttatgaatttcattgattggccagATTCCTCTAGCTCGATATTTACCTACTTGGAGAGGGAACGTTATAGATGCACAAATCGAAATGAATCCATCCCGTGTTTTAGGCATGTCTCTATCTGTCA

Basic information

species Glycine max
transcript GLYMA16G01410.1
intron # 5
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GLYMA16G01410.2 (Glycine max), 3'ss of exon 5
lower sequence: AT1G17350.1 (Arabidopsis thaliana), 3'ss of exon 7
agtaggataaggcttttgatgctattgttgtttgtacctagttgatttctatatca-acatattgggtgtcatatgcttatgaattt-cattgattg-gccagATTCCTCTAGCTCGATATTTACCTACTTGGAGAGGGAACGTTATAGATGCACAAATCGAAATGAATCCATCCCGTGTTTTAGGCATGTCTCTATCTGTCA
   | || ||        |    |  | | |   |    | |  | ||  ||||   || | | |  |      |  | || |  |    |||| |    |||||||||||||||||||| || || || |||||||| || ||||||||||   |||| || |||||||||   |||||| |||| ||||| || || || |
---atgaaaacataaccaaaaagacagatctccattatgaatcaacttgaatatttcacttgtcgtctaaggcctattaataacctgatgttgaatatatcagATTCCTCTAGCTCGATACTTGCCAACATGGAGAGGAAATGTTATAGATGTGGAAATGGAGATGAATCCAGGTCGTGTTCTAGGTATGTCACTGTCCGTAA

upper sequence: GLYMA16G01410.2 (Glycine max), 3'ss of exon 5
lower sequence: AT1G17350.2 (Arabidopsis thaliana), 3'ss of exon 7
-----------------------------------------------------------------------------agtaggataaggcttttgatgctattgttgtttgtacctagttgatttctatatca-acatattgggtgtcatatgcttatgaattt-cattgattg-gccagATTCCTCTAGCTCGATATTTACCTACTTGGAGAGGGAACGTTATAGATGCACAAATCGAAATGAATCCATCCCGTGTTTTAGGCATGTCTCTATCTGTCA
                                                                                | || ||        |    |  | | |   |    | |  | ||  ||||   || | | |  |      |  | || |  |    |||| |    |||||||||||||||||||| || || || |||||||| || ||||||||||   |||| || |||||||||   |||||| |||| ||||| || || || |
gttaccaacaaaaagcttagagcattatacacatccttttttgttttttaactctctttagacaaaaccttcggctttagatgaaaacataaccaaaaagacagatctccattatgaatcaacttgaatatttcacttgtcgtctaaggcctattaataacctgatgttgaatatatcagATTCCTCTAGCTCGATACTTGCCAACATGGAGAGGAAATGTTATAGATGTGGAAATGGAGATGAATCCAGGTCGTGTTCTAGGTATGTCACTGTCCGTAA

upper sequence: GLYMA16G01410.2 (Glycine max), 3'ss of exon 5
lower sequence: Vv09s0002g00680.t01 (Vitis vinifera), 3'ss of exon 6
agtaggataaggcttttgatgctattgttgtttgtacctagttgatttctatatcaacatattgggtgtcatatgcttatgaattt---cattgat---tggccagATTCCTCTAGCTCGATATTTACCTACTTGGAGAGGGAACGTTATAGATGCACAAATCGAAATGAATCCATCCCGTGTTTTAGGCATGTCTCTATCTGTCA
  |  ||       |  | ||| ||  |   | | || |  ||  ||  |  || || ||||    | |  | || ||   ||  |   || || |   |   ||||||||||| ||||  ||  |||| || |||||||| || |||||||||||| | || |||||||||||||| ||| |  | || |||||||| |||||||
-ttgagagttattctgcgttgccatgatc--tagaacttgtttttttggtgaatgaatatatc---ttttctgtgtttgaaaacctgaacagtggtgtcttttcagATTCCTCTTGCTCATTACCTACCAACATGGAGAGGAAATGTTATAGATGCAGAGATAGAAATGAATCCATCGCGTATCGTCGGTATGTCTCTGTCTGTCA

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|6963593|gb|AW432286.1|AW432286
EST:     CATGGCAAGCTTTTGTTTATGTGCCTGAAGGAAACTGGTATATCATGAAA                         ATTCCTCTAGCTCGATATTTACCTACTTGGAGAGGGAACGTTATAGATGCA
genomic: CATGGCAAGCTTTTGTTTATGTGCCTGAAGGAAACTGGTATATCATGAAGgtaagttcta ... gattggccagATTCCTCTAGCTCGATATTTACCTACTTGGAGAGGGAACGTTATAGATGCA
EST: gi|192331743|gb|FK024847.1|FK024847
EST:     CATGGCAAGCTTTTGTTTATGTGCCTGAAGGAAACTGGTATATCATGAAG                         ATTCCTCTAGCTCGATATTTACCTACTTGGAGAGGGAACGTTATAGATGCA
genomic: CATGGCAAGCTTTTGTTTATGTGCCTGAAGGAAACTGGTATATCATGAAGgtaagttcta ... gattggccagATTCCTCTAGCTCGATATTTACCTACTTGGAGAGGGAACGTTATAGATGCA
EST: gi|192330603|gb|FK021936.1|FK021936
EST:     CATGGCAAGCTTTTGTTTATGTGCCTGAAGGAAACTGGTATATCATGAAG                         ATTCCTCTAGCTCGATATTTACCTACTTGGAGAGGGAACGTTATAGATGCA
genomic: CATGGCAAGCTTTTGTTTATGTGCCTGAAGGAAACTGGTATATCATGAAGgtaagttcta ... gattggccagATTCCTCTAGCTCGATATTTACCTACTTGGAGAGGGAACGTTATAGATGCA
EST: gi|193563475|gb|FK521364.1|FK521364
EST:     CATGGCAAGCTTTTGTTTATGTGCCTGAAGGAAACTGGTATATCATGAAG                         ATTCCTCTAGCTCGATATTTACCTACTTGGAGAGGGAACGTTATAGATGCA
genomic: CATGGCAAGCTTTTGTTTATGTGCCTGAAGGAAACTGGTATATCATGAAGgtaagttcta ... gattggccagATTCCTCTAGCTCGATATTTACCTACTTGGAGAGGGAACGTTATAGATGCA
EST: gi|192328840|gb|FK022584.1|FK022584
EST:     CATGGCAAGCTTTTGTTTATGTGCCTGAAGGAAACTGGTATATCATGAAG                         ATTCCTCTAGCTCGATATTTACCTACTTGGAGAGGGAACGTTATAGATGCA
genomic: CATGGCAAGCTTTTGTTTATGTGCCTGAAGGAAACTGGTATATCATGAAGgtaagttcta ... gattggccagATTCCTCTAGCTCGATATTTACCTACTTGGAGAGGGAACGTTATAGATGCA


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

tttctatatcaacatattgggtgtcatatgcttatgaatttcattgattggccagATTCCTCTAGCTCGATATTTACCTACTTGGAGAGGGAACGTTATAGATGCACAAATCGAAATGAATCCATCCCGTGTTTTAGGCATGTCTCTATCTGTCA
                                         cattgat  putative branch site (score: 4)
                               ttatgaatttcatt  TA-rich tract