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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

...tgttctgttacttttagctgtttgcacttgatctaattgacattaacttgcttgtatcacgcagaatgatatacttttgcttaacaattttcttacacagCTTTGGAGATTGAGTTTACAAAGTCACAGGTCGTTGCTGGAATCCCTGGGACTTTTTTTTGTGCATGGTATGCTTTGCGGAAGCATTGGCTAGCAAATAA

Basic information

species Glycine max
transcript GLYMA06G08620.3
intron # 5
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GLYMA06G08620.3 (Glycine max), 3'ss of exon 5
lower sequence: AT2G03120.1 (Arabidopsis thaliana), 3'ss of exon 4
tgttctgttacttttagctgtttgcacttgatctaattgacatta-acttgcttgtatcacgcagaatgatatacttt--tgcttaacaattttct--tacacagCTTTGGAGATTGAGTTTACAAAGTCACAGGTCGTTGCTGGAATCCCTGGGACTTTTTTTTGTGCATGGTATGCTTTGCGGAAGCATTGGCTAGCAAATAA
       |   ||||  || ||   |||  ||| | ||    ||  |      ||  | |       | || | ||||  ||  |||||  ||| |  || |||||||||||| | ||||| |||||||| || || ||||| ||||||||||| || || || ||||| |||||||| | |   || |||||||| || || ||
-----aatctgtttttacttttcttactctatccagttattgttctatccttctggttgagatgtgcttattttctttgatgtctaacacctttttactaaacagCTTTGGAGGTAGAGTTCACAAAGTCCCAAGTTGTTGCGGGAATCCCTGGAACATTCTTCTGTGCGTGGTATGCGTGGAAAAAACATTGGCTGGCTAACAA

upper sequence: GLYMA06G08620.3 (Glycine max), 3'ss of exon 5
lower sequence: Vv06s0009g03520.t01 (Vitis vinifera), 3'ss of exon 5
--tgttctgttacttttagctgtttgcacttg-atctaattgacattaacttgcttgtatcacgcagaatgatatacttttgcttaacaattttcttacacagCTTTGGAGATTGAGTTTACAAAGTCACAGGTCGTTGCTGGAATCCCTGGGACTTTTTTTTGTGCATGGTATGCTTTGCGGAAGCATTGGCTAGCAAATAA
  |  | | ||  ||  |  | | |  | ||  || | | ||   |||  || | |  || ||||||||||||||   ||| ||| |||  | |||||||||||||||||||||||||| ||||  || ||| ||||||| | ||| || ||||| ||||| ||||||||||||||||  | ||||||||||||||| || ||
attcctttattctttccacatctctcaattttcattttagtggttttatttttcctcaattacgcagaatgatat---ttttctttacatctgtcttacacagCTTTGGAGATTGAGTTCACAAGATCTCAGATCGTTGCAGCAATACCAGGGACCTTTTTCTGTGCATGGTATGCTTCCCAGAAGCATTGGCTAGCCAACAA
















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|6072670|gb|AW102057.1|AW102057
EST:     GCCAAAGCATTGGAACGATGACGTTATAGTCTGGCATTTTCCATATTTCC                         G
genomic: GCCAAAGCATTGGAACGATGACGTTATAGTCTGGCATTTTCCATATTTCCgttgtatgtg ... tcttacacag-
EST: gi|6072670|gb|AW102057.1|AW102057
EST:     GCCAAAGCATTGGAACGATGACGTTATAGTCTGGCATTTTCCATATTTCC                         G
genomic: GCCAAAGCATTGGAACGATGACGTTATAGTCTGGCATTTTCCATATTTCCgttgtatgtg ... tcttacacag-
EST: gi|6072670|gb|AW102057.1|AW102057
EST:     GCCAAAGCATTGGAACGATGACGTTATAGTCTGGCATTTTCCATATTTCC                         G
genomic: GCCAAAGCATTGGAACGATGACGTTATAGTCTGGCATTTTCCATATTTCCgttgtatgtg ... tcttacacag-
EST: gi|6072670|gb|AW102057.1|AW102057
EST:     GCCAAAGCATTGGAACGATGACGTTATAGTCTGGCATTTTCCATATTTCC                         G
genomic: GCCAAAGCATTGGAACGATGACGTTATAGTCTGGCATTTTCCATATTTCCgttgtatgtg ... tcttacacag-
EST: gi|58024459|gb|CX711200.1|CX711200
EST:     GCCAAAGCATTGGAACGATGACGTTATAGTCTGGCATTTTCCATATTTCC                         G
genomic: GCCAAAGCATTGGAACGATGACGTTATAGTCTGGCATTTTCCATATTTCCgttgtatgtg ... tcttacacag-
EST: gi|58024459|gb|CX711200.1|CX711200
EST:     GCCAAAGCATTGGAACGATGACGTTATAGTCTGGCATTTTCCATATTTCC                         G
genomic: GCCAAAGCATTGGAACGATGACGTTATAGTCTGGCATTTTCCATATTTCCgttgtatgtg ... tcttacacag-
EST: gi|58024459|gb|CX711200.1|CX711200
EST:     GCCAAAGCATTGGAACGATGACGTTATAGTCTGGCATTTTCCATATTTCC                         G
genomic: GCCAAAGCATTGGAACGATGACGTTATAGTCTGGCATTTTCCATATTTCCgttgtatgtg ... tcttacacag-
EST: gi|58024459|gb|CX711200.1|CX711200
EST:     GCCAAAGCATTGGAACGATGACGTTATAGTCTGGCATTTTCCATATTTCC                         G
genomic: GCCAAAGCATTGGAACGATGACGTTATAGTCTGGCATTTTCCATATTTCCgttgtatgtg ... tcttacacag-
EST: gi|254349303|gb|GR860101.1|GR860101
EST:     GCCAAAGCATTGGAACGATGACGTTATAGTCTGGCATTTTCCATATTTCC                         G
genomic: GCCAAAGCATTGGAACGATGACGTTATAGTCTGGCATTTTCCATATTTCCgttgtatgtg ... tcttacacag-
EST: gi|254349303|gb|GR860101.1|GR860101
EST:     GCCAAAGCATTGGAACGATGACGTTATAGTCTGGCATTTTCCATATTTCC                         G
genomic: GCCAAAGCATTGGAACGATGACGTTATAGTCTGGCATTTTCCATATTTCCgttgtatgtg ... tcttacacag-
EST: gi|254349303|gb|GR860101.1|GR860101
EST:     GCCAAAGCATTGGAACGATGACGTTATAGTCTGGCATTTTCCATATTTCC                         G
genomic: GCCAAAGCATTGGAACGATGACGTTATAGTCTGGCATTTTCCATATTTCCgttgtatgtg ... tcttacacag-
EST: gi|254349303|gb|GR860101.1|GR860101
EST:     GCCAAAGCATTGGAACGATGACGTTATAGTCTGGCATTTTCCATATTTCC                         G
genomic: GCCAAAGCATTGGAACGATGACGTTATAGTCTGGCATTTTCCATATTTCCgttgtatgtg ... tcttacacag-
EST: gi|213600256|gb|DB964336.1|DB964336
EST:     GCCAAAGCATTGGAACGATGACGTTATAGTCTGGCATTTTCCATATTTCC                         G
genomic: GCCAAAGCATTGGAACGATGACGTTATAGTCTGGCATTTTCCATATTTCCgttgtatgtg ... tcttacacag-
EST: gi|213600256|gb|DB964336.1|DB964336
EST:     GCCAAAGCATTGGAACGATGACGTTATAGTCTGGCATTTTCCATATTTCC                         G
genomic: GCCAAAGCATTGGAACGATGACGTTATAGTCTGGCATTTTCCATATTTCCgttgtatgtg ... tcttacacag-
EST: gi|213600256|gb|DB964336.1|DB964336
EST:     GCCAAAGCATTGGAACGATGACGTTATAGTCTGGCATTTTCCATATTTCC                         G
genomic: GCCAAAGCATTGGAACGATGACGTTATAGTCTGGCATTTTCCATATTTCCgttgtatgtg ... tcttacacag-
EST: gi|213600256|gb|DB964336.1|DB964336
EST:     GCCAAAGCATTGGAACGATGACGTTATAGTCTGGCATTTTCCATATTTCC                         G
genomic: GCCAAAGCATTGGAACGATGACGTTATAGTCTGGCATTTTCCATATTTCCgttgtatgtg ... tcttacacag-


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

acttgcttgtatcacgcagaatgatatacttttgcttaacaattttcttacacagCTTTGGAGATTGAGTTTACAAAGTCACAGGTCGTTGCTGGAATCCCTGGGACTTTTTTTTGTGCATGGTATGCTTTGCGGAAGCATTGGCTAGCAAATAA
                                            ttcttac  putative branch site (score: 2)
                                          ttttcttac  CT-rich tract
                                   ttaacaattttctta  TA-rich tract