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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

...tttgtttcaacatttaatttcaagtgatcattgattatcatgccgtaaataacaaacacctacttgacatctcatggatgaccttggttattactttcagGGGATTAGACAGGAGGTTATTGTTGATTTGGTGGAGCAGTGTCGAACTTACAAGCAGAGAGTGGTTCACCTTGTCAACTCAACTTC

Basic information

species Glycine max
transcript GLYMA17G26440.1
intron # 6
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GLYMA17G26440.2 (Glycine max), 3'ss of exon 6
lower sequence: LOC_Os06g22650.1 (Oryza sativa), 3'ss of exon 6
----tttgtttcaacatttaatttcaagtgatcattgattatcatgccgtaaataacaaacacctacttgacatctcatggatgaccttggttat---------tacttt--------------------------------cagGGGATTAGACAGGAGGTTATTGTTGATTTGGTGGAGCAGTGTCGAACTTACAAGCAGAGAGTGGTTCACCTTGTCAACTCAACTTC
    |||   |  |||||  | ||||  | ||  || |  |   | | | | | || ||| | | | |  |  |||  || | || |||  | ||         || |||                                |||||  | ||||||||||||||||| ||  | ||||| || |||||  ||||||||||||| ||||| || ||||||||||||||  |
gtaattttcctgtacattgcagttcatataat-gttcagaaaggtactgcagagaaaaaagatccattccatttctagtgtaggatctttttgataaaattggatatttttgctgccaagatgctaaaatgtaatgaatacacagGGTCTAAGACAGGAGGTTATTGTGGACCTTGTGGATCAATGTCGTTCTTACAAGCAGAGGGTGGTACAGCTTGTCAACTCAACCAC

upper sequence: GLYMA17G26440.2 (Glycine max), 3'ss of exon 6
lower sequence: LOC_Os01g12880.1 (Oryza sativa), 3'ss of exon 6
tttgtttcaacatttaatttcaagtgatcattgattatcatgccgtaaataacaaacacctacttgacatctcatggatgaccttggtt-attacttt-----cagGGGATTAGACAGGAGGTTATTGTTGATTTGGTGGAGCAGTGTCGAACTTACAAGCAGAGAGTGGTTCACCTTGTCAACTCAACTTC
   | ||||| || |    | |  || ||  |  |||   | |  | || |||   |   |   | |  | |  ||  |    |||  | | |||| |     |||||  | || |||||||| ||||| ||  | || || |||||||| |||||||||||||||||||| |  || || ||  | ||  |
--aggttcaa-atctgtacttatatgttccatacttagt-tac--ttaacaacctccttttgtgttaggtttactgattttgtttgtctgactactctgtacacagGGACTAAGGCAGGAGGTAATTGTGGAGCTTGTTGATCAGTGTCGCACTTACAAGCAGAGAGTGGTACTACTAGTTAATGCTACCGC

upper sequence: GLYMA17G26440.2 (Glycine max), 3'ss of exon 6
lower sequence: AT4G32760.1 (Arabidopsis thaliana), 3'ss of exon 6
tttgtttcaacatttaatttca-agtgatca------ttgattatca-tgccgtaaataaca-aacacctacttgacatc--tcatggatgaccttggttattactttcagGGGATTAGACAGGAGGTTATTGTTGATTTGGTGGAGCAGTGTCGAACTTACAAGCAGAGAGTGGTTCACCTTGTCAACTCAACTTC
   ||  ||  ||||| || || |||| |         || |||  | ||  |   ||| |  || |  ||||  | |    ||||   |  | ||  |   |   ||||||   | | ||| |||||||| || ||| |||||||||||||||| || ||||| || |||||||| ||||| |||||||| |||||
---gtaacacgatttagttgcagagtgtttgagctacctgtttacaagtgtaggctatagcccaaaatatactaaataatgatcattcttctcgtttttggatttattcagGATCTCAAACAAGAGGTTATGGTCGATCTGGTGGAGCAGTGTCGTACATACAAACAAAGAGTGGTGCACCTCGTCAACTCGACTTC

upper sequence: GLYMA17G26440.2 (Glycine max), 3'ss of exon 6
lower sequence: Vv04s0008g03720.t01 (Vitis vinifera), 3'ss of exon 6
------tttgtttcaacatttaatttcaagtgatcattgattatcatgccgtaaataacaaacacctacttgacatctcatggatgaccttggttattactttcagGGGATTAGACAGGAGGTTATTGTTGATTTGGTGGAGCAGTGTCGAACTTACAAGCAGAGAGTGGTTCACCTTGTCAACTCAACTTC
      ||||| ||| | || |  ||    |   ||   ||||   | |  ||  |  ||  | |    || |  |    ||| | |  || ||  | | |  |||||| | || |||||||||||  | || ||||| || |||||||| || |||||||| |||||||| |||||||||||||||||| |
tatgcatttgtgtcatccttgaggtttttttttgcacatattagatttctttagtt--cagtctctgtgttcatgt----tgggttatttttgtcctaattaacagGGGCTCAGGCAGGAGGTTATCATGGACTTGGTAGATCAGTGTCGGACATACAAGCAAAGAGTGGTCCACCTTGTCAACTCAACTGC

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|254344824|gb|GR855588.1|GR855588
EST:     TGGATGTTCTTGCAGAAATGCTCAATGCCTTAGACCCTAGTAACAAAGAA                         GG-ATTAGACAGGAGG
genomic: TGGATGTTCTTGCAGAAATGCTCAATGCCTTAGACCCTAGTAACAAAGAAgtaagttact ... ttactttcagGGGATTAGACAGGAGG
EST: gi|16105990|gb|BI893730.1|BI893730
EST:     TGGATGTTCTTGCAGAAATGCTCAATGCCTTAGACCCTAGTAACAAAGAA                         GGGATTAGACAGGAGGTTATTGCTGATTTGGTGGAGCAGTGTCGAACTTAC
genomic: TGGATGTTCTTGCAGAAATGCTCAATGCCTTAGACCCTAGTAACAAAGAAgtaagttact ... ttactttcagGGGATTAGACAGGAGGTTATTGTTGATTTGGTGGAGCAGTGTCGAACTTAC


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

taaataacaaacacctacttgacatctcatggatgaccttggttattactttcagGGGATTAGACAGGAGGTTATTGTTGATTTGGTGGAGCAGTGTCGAACTTACAAGCAGAGAGTGGTTCACCTTGTCAACTCAACTTC
                                             ttactttc  CT-rich tract
                                          ttattacttt  TA-rich tract