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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtatgtcccttttcacaaactttgaattcatgtgattatgttatggaaacttacatcaattttatttgtctcttcatagGTACCAAACTGAGCATGAGTTGCTTAGGTACTTGTATAAGCTACAATCAAAAGATCTCTCACTATGCCACAGTATGATTCCACTTGGATCTTGTACAATG

Basic information

species Glycine max
transcript GLYMA17G34690.2
intron # 4
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GLYMA17G34690.1 (Glycine max), 3'ss of exon 4
lower sequence: GRMZM2G104310_T02 (Zea mays), 3'ss of exon 2
--gtatgtccct----tttcacaaactttgaattcatgtgattatgttatggaaacttacatcaattttatttgtctc--ttcatagGTACCAAACTGAGCATGAGTTGCTTAGGTACTTGTATAAGCTACAATCAAAAGATCTCTCACTATGCCACAGTATGATTCCACTTGGATCTTGTACAATG
  |  || | ||    | | |     |  |  |       | ||  || ||| ||| |   | | ||||  |  |||    |   |||||||| || ||||||||| | ||| | ||| || ||||| | || || || |||||||| ||||||||||||||||| || || || ||||| ||||||
gtgcgtgcctctgaaatctgaatgcttgcgcgtctgctccactaatttgtgggaacatgtctgatttttcatgctctgggcttgcagGTACCACACAGAGCATGAGCTTCTTCGTTACCTGCATAAGTTGCAGTCCAAGGATCTCTCGCTATGCCACAGTATGATCCCTCTGGGTTCTTGCACAATG

upper sequence: GLYMA17G34690.1 (Glycine max), 3'ss of exon 4
lower sequence: AT2G26080.1 (Arabidopsis thaliana), 3'ss of exon 4
gtatgtcccttttcacaaactttgaattcat---------gtga-ttatgttatggaaacttacatcaattttatttgtctcttca--------tagGTACCAAACTGAGCATGAGTTGCTTAGGTACTTGTATAAGCTACAATCAAAAGATCTCTCACTATGCCACAGTATGATTCCACTTGGATCTTGTACAATG
||||||  | ||    |||  |||  | | |         |||  ||||  |   | | || ||||  | |||   | | |  | |        ||||||||| || ||||||||||||||||||||| |  | ||| |||||   |||||||| ||| | |||||||| ||||||||||||||||||||||| |||
gtatgttaccttctttaaatcttggttccttcattgccctgtggcttattgttaagtacctcacatttactttcccttttttcttacatttggttagGTACCACACGGAGCATGAGTTGCTTAGGTACATCCACAAGTTACAAAATAAAGATCTATCATTGTGCCACAGCATGATTCCACTTGGATCTTGTACGATG

upper sequence: GLYMA17G34690.1 (Glycine max), 3'ss of exon 4
lower sequence: AT4G33010.1 (Arabidopsis thaliana), 3'ss of exon 4
gtat-gtcccttttcacaaactttgaatt-catgtga-ttatgttatggaaacttacatcaattttatttgtctcttca----------tagGTACCAAACTGAGCATGAGTTGCTTAGGTACTTGTATAAGCTACAATCAAAAGATCTCTCACTATGCCACAGTATGATTCCACTTGGATCTTGTACAATG
||||  | |  ||     ||  |||| |  | | | | || ||   ||| |   ||  ||| |||| |||  |  ||            ||||||||| || ||||||||||||||||||||| |  | ||| |||| ||||| ||||| ||||| |||||||| ||||||||  | ||||||||||| |||
gtattattctgttctttgaatcttgagtggcttattacttgtggattggcag--tatctcatttttgttttccattttgataatatgattagGTACCACACAGAGCATGAGTTGCTTAGGTACATCCACAAGTTACAGTCAAAGGATCTATCACTGTGCCACAGCATGATTCCGTTGGGATCTTGTACGATG

upper sequence: GLYMA17G34690.1 (Glycine max), 3'ss of exon 4
lower sequence: Vv04s0008g01300.t01 (Vitis vinifera), 3'ss of exon 4
gtatgtcccttttcacaaactttgaattcat--gtgattatgttatggaaacttacatcaattttatttgtctcttcatagGTACCAAACTGAGCATGAGTTGCTTAGGTACTTGTATAAGCTACAATCAAAAGATCTCTCACTATGCCACAGTATGATTCCACTTGGATCTTGTACAATG
|||| ||||||| || ||| ||| | |   |  ||  || ||   |  | |||  | | | ||| | |||  | |||  ||||| || || || ||||||||||| || ||| || | | |||||||||||| ||||| ||| ||||||| |||||||||||  | |||||||||||||||
gtatatccctttgcagaaaattttagtcacttggtagttttgcatttaagactctc-tgactttcacttgctttttc--agGTATCATACAGAACATGAGTTGCTAAGATACATGCAAAGGCTACAATCAAAGGATCTTTCATTATGCCATAGTATGATTCCTTTGGGATCTTGTACAATG

upper sequence: GLYMA17G34690.1 (Glycine max), 3'ss of exon 4
lower sequence: Vv11s0016g02280.t01 (Vitis vinifera), 3'ss of exon 5
--gtatgtcccttttcacaaactttgaattcatgtgattatgttatggaaacttacatcaattttatttgtctcttcatagGTACCAAACTGAGCATGAGTTGCTTAGGTACTTGTATAAGCTACAATCAAAAGATCTCTCACTATGCCACAGTATGATTCCACTTGGATCTTGTACAATG
    | | || |       || |   |      ||| || | | |   |   ||||    |  | |||| |||  |  ||||||||| || ||||||||| | || || ||| |  |||   | ||| | || ||||||||  ||||||||||||||||||| || ||||||||||| |||
gtaaaggcccgtccctttcaattcaaagcattggtggtt-tttcacttactgttaccctgacat-attt-tcttgtattagGTACCACACGGAGCATGAGCTACTCAGATACATTCATAGATTGCAAGCGAAGGATCTCTCTTTATGCCACAGTATGATTCCTCTGGGATCTTGTACTATG

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|209728382|gb|BW652039.1|BW652039
EST:     TCTGGATTAGTTAGGAAGAGCCCTTATCTGACACACTCTATCTTTAACAT                         GTACCAAACTGAGCATGAGTTGCTTAGGTACTTGTATAAGCTACAATCAAA
genomic: TCTGGATTAGTTAGGAAGAGCCCTTATCTGACACACTCTATCTTTAACATgtatgtccct ... ctcttcatagGTACCAAACTGAGCATGAGTTGCTTAGGTACTTGTATAAGCTACAATCAAA
EST: gi|17400446|gb|BM177228.1|BM177228
EST:     TCTGGATTAGTTAGGAAGAGCCCTTATCTGACACACTCTATCTTTAACAT                         GTACCAAACTGAGCATGAGTTGCTTAGGTACTTGTATAAGCTACAATCAAA
genomic: TCTGGATTAGTTAGGAAGAGCCCTTATCTGACACACTCTATCTTTAACATgtatgtccct ... ctcttcatagGTACCAAACTGAGCATGAGTTGCTTAGGTACTTGTATAAGCTACAATCAAA
EST: gi|23064257|gb|BU579030.1|BU579030
EST:     TCTGGATTAGTTAGGAAGAGCCCTTATCTGACACACTCTATCTTTAACAT                         GTACCAAACTGAGCATGAGTTGCTTAGGTACTTGTATAAGCTACAATCAAA
genomic: TCTGGATTAGTTAGGAAGAGCCCTTATCTGACACACTCTATCTTTAACATgtatgtccct ... ctcttcatagGTACCAAACTGAGCATGAGTTGCTTAGGTACTTGTATAAGCTACAATCAAA


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

aattcatgtgattatgttatggaaacttacatcaattttatttgtctcttcatagGTACCAAACTGAGCATGAGTTGCTTAGGTACTTGTATAAGCTACAATCAAAAGATCTCTCACTATGCCACAGTATGATTCCACTTGGATCTTGTACAATG
                       aacttac  putative branch site (score: 2)
                                   ttttatttgtctcttc  putative PPT
                      aaacttacatcaattt  TA-rich tract