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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

...gaatacatgttctgctgctatcatgtatttaaaccatatttcacgttaagtttatattaatatcaattcttaatgctttcaattaatttttcatgggcagGATTCGTCGTGGTCATCAAGTTTATACAGAAGTCTGTGCTTCCTGCCATTCTATGTCTTTGATATCGTATCGTGATTTGGTTGGTGTTGCTTATACAGAA

Basic information

species Glycine max
transcript GLYMA16G06700.1
intron # 4
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GLYMA16G06700.1 (Glycine max), 3'ss of exon 4
lower sequence: LOC_Os05g23620.1 (Oryza sativa), 3'ss of exon 4
gaataca-tgttctgctgctatcatgtatttaaaccatatttcacgttaagtttatattaatatcaatt-cttaatgctttcaatt---aatttttcatgggcagGATTCGTCGTGGTCATCAAGTTTATACAGAAGTCTGTGCTTCCTGCCATTCTATGTCTTTGATATCGTATCGTGATTTGGTTGGTGTTGCTTATACAGAA
 |  ||| | ||||  ||||  || | |    || | | ||   |  ||      ||||  |     || || | ||  ||  |||   |   ||  |||  ||| ||||| ||||| ||||||||||||||| |||| ||||| || |||||||| ||||| || || ||||| || |||||||||||||| || || || |||
-atcacaatattcttttgctcccaagaa----aatccttttaaccactactaccctattcttgctgtttactcattgtcttatatttgaacacttctatgatcagTATTCGGCGTGGACATCAAGTTTATACACAAGTGTGTGCCTCTTGCCATTCCATGTCATTAATTTCGTACCGAGATTTGGTTGGTGTGGCCTACACTGAA

upper sequence: GLYMA16G06700.1 (Glycine max), 3'ss of exon 4
lower sequence: LOC_Os01g70960.2 (Oryza sativa), 3'ss of exon 3
gaatacatgttctgctgctatcatgtatttaaaccatatttcacgttaagtttatattaa-tatcaattcttaatgctttcaatt-aatttttcatgggcagGATTCGTCGTGGTCATCAAGTTTATACAGAAGTCTGTGCTTCCTGCCATTCTATGTCTTTGATATCGTATCGTGATTTGGTTGGTGTTGCTTATACAGAA
  || |   | ||||||   |  | | || |     | |||     ||  ||||| ||   | |||  |||| ||   || | || ||      ||| |||| ||  | ||||| ||||||||||||||| |||| ||||| || || || || ||||| ||||| || || || |||||||||||||| || |||||||||
--atgcccatgctgctgaggtagtcttttgagctgttcttttttcatatttttatcttttctttcacctctttatttatttattttaaaaacatatgagcagAATAAGGCGTGGCCATCAAGTTTATACACAAGTGTGTGCCTCTTGTCACTCAATGTCCTTGATTTCATACCGAGATTTGGTTGGTGTGGCCTATACAGAA

upper sequence: GLYMA16G06700.1 (Glycine max), 3'ss of exon 4
lower sequence: GRMZM2G032367_T01 (Zea mays), 3'ss of exon 3
gaatacatgttctgctgctatcatgtatttaaaccatatttcacgttaagtttatattaatat-caattcttaatgctttcaattaatttttcatgggcagGATTCGTCGTGGTCATCAAGTTTATACAGAAGTCTGTGCTTCCTGCCATTCTATGTCTTTGATATCGTATCGTGATTTGGTTGGTGTTGCTTATACAGAA
   ||  |||  || | |||  ||  |||        | | |  ||    | | |  |  |||     ||| | |  | | |   || | ||  ||  ||| ||||| || || ||||||||||| ||| |||| |||||||| || || || ||||| ||||| || || |||||||||||||| || || ||||| || 
-tttagttgtcttgtttctaggataaattcttgttgaagtgctagtaccttgttttcttgtatgttgctctaatttatcttataaaaatattattgcacagAATTCGCCGAGGGCATCAAGTTTACACACAAGTTTGTGCTTCTTGTCACTCCATGTCCTTGATTTCATACCGTGATTTGGTTGGGGTGGCCTATACTGAG

upper sequence: GLYMA16G06700.1 (Glycine max), 3'ss of exon 4
lower sequence: AT3G27240.1 (Arabidopsis thaliana), 3'ss of exon 3
-----gaatacatgttctgctgctatcatgtatttaaaccatatttcacgttaagtttatat-taatatcaattcttaatgctttcaattaatttttcatgggcagGATTCGTCGTGGTCATCAAGTTTATACAGAAGTCTGTGCTTCCTGCCATTCTATGTCTTTGATATCGTATCGTGATTTGGTTGGTGTTGCTTATACAGAA
      | |   | | ||||| |  | || |         | | |||| || || ||| | |    ||| |||| || |         || || ||  ||| ||||||| |||||||| ||||||||||||    |||||||||| || |||||||| |||||| |||| || || || || ||||| ||||| || || ||||| 
aaagaaagtgactatcctgctaccctaatattagactgtgaaacttca-gtgaaatttttgtactgtatgaattattgaaa-----ggttgatgttgtatgagcagGATCCGTCGTGGGCATCAAGTTTATCAGCAAGTCTGTGCATCATGCCATTCAATGTCTCTGATCTCATACCGAGACTTGGTGGGTGTCGCCTACACAGAG

upper sequence: GLYMA16G06700.1 (Glycine max), 3'ss of exon 4
lower sequence: AT5G40810.2 (Arabidopsis thaliana), 3'ss of exon 2
----gaatacatgttctgctgctatcat-gtatttaaacc---atatttcacgttaagtttatattaatatcaattcttaatgctttcaattaatttttcatgggcagGATTCGTCGTGGTCATCAAGTTTATACAGAAGTCTGTGCTTCCTGCCATTCTATGTCTTTGATATCGTATCGTGATTTGGTTGGTGTTGCTTATACAGAA
    |  | || | |    | | |||||  || | |||     | | |  |  | ||  ||| |  ||| | |        | ||  |  || |||| | ||| ||||||| ||||||||||| |||||||||    |||| ||||| || |||||||| |||||| |||| || || || || ||||| |||||||| || ||||| 
gtgagtgttcaagctacaattcaatcatcatagtgaaattgcaacactaaagttgaaaattagagaaatttgagactgctttactgacggttgatttgtaatgagcagGATCCGTCGTGGTCACCAAGTTTATCAGCAAGTTTGTGCGTCTTGCCATTCGATGTCTCTGATCTCATACCGAGACTTGGTGGGTGTTGCCTACACAGAG

upper sequence: GLYMA16G06700.1 (Glycine max), 3'ss of exon 4
lower sequence: Vv14s0171g00330.t01 (Vitis vinifera), 3'ss of exon 3
gaatacatgttctgctgctatcatgtatttaaaccatatttcacgttaagtttatattaatatcaatt-cttaatgc------tttcaattaatttttcatgggcagGATTCGTCGTGGTCATCAAGTTTATACAGAAGTCTGTGCTTCCTGCCATTCTATGTCTTTGATATCGTATCGTGATTTGGTTGGTGTTGCTTATACAGAA
       || |||        |     |||     |||| |   || |  || || || ||||||||| || |||||      ||| |    | |||   || ||||||||||||||||||| || |||||   | |||||||||| |||||||||||||||||  | || || ||||||||||| || ||||| || |||||||||
-----tttgatctatctagggccaaactttttgttatatcttgggtca--ttaatcttgatatcaatttctcaatgcaactttttttatgccaatttatttgagcagGATTCGTCGTGGTCACCAGGTTTACCAACAAGTCTGTGCATCCTGCCATTCTATGTCACTAATTTCATATCGTGATTTAGTGGGTGTGGCATATACAGAA

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|209723017|gb|BW668861.1|BW668861
EST:     AGCTATCCATGGCCTCACAAGGGAATTCTTAGTTCATATGATCACGCTTC                         GATTCGTCGTGGTCATCAAGTTTATACAGAAGTCTGTGCTTCCTGCCATTC
genomic: AGCTATCCATGGCCTCACAAGGGAATTCTTAGTTCATATGATCACGCTTCgtaagtttgg ... tcatgggcagGATTCGTCGTGGTCATCAAGTTTATACAGAAGTCTGTGCTTCCTGCCATTC
EST: gi|192326638|gb|FK018855.1|FK018855
EST:     AGCTATCCATGGCCTCGCAAGGGAATTCTTAGTTCATATGATCACGCTTC                         GATTCGTCGTGGTCATCAAGTTTATACAGAAGTCTGTGCTTCCTGCCATTC
genomic: AGCTATCCATGGCCTCACAAGGGAATTCTTAGTTCATATGATCACGCTTCgtaagtttgg ... tcatgggcagGATTCGTCGTGGTCATCAAGTTTATACAGAAGTCTGTGCTTCCTGCCATTC
EST: gi|17023748|gb|BM094782.1|BM094782
EST:     AGCTATCCATGGCCTCACAAGGGAATTCTTAGTTCATATGATCACGCTTC                         GATTCGTCGTGGTCATCAAGTTTATACAGAAGTCTGTGCTTCCTGCCATTC
genomic: AGCTATCCATGGCCTCACAAGGGAATTCTTAGTTCATATGATCACGCTTCgtaagtttgg ... tcatgggcagGATTCGTCGTGGTCATCAAGTTTATACAGAAGTCTGTGCTTCCTGCCATTC
EST: gi|192306424|gb|FG997164.1|FG997164
EST:     AGCTATCCATGGCCTCACAAGGGAATTCTTAGTTCATATGATCACGCTTC                         GATTCGTCATGGTCATCAAGTTTATACAGAAGTCTGTGCTTCCTGCCATTC
genomic: AGCTATCCATGGCCTCACAAGGGAATTCTTAGTTCATATGATCACGCTTCgtaagtttgg ... tcatgggcagGATTCGTCGTGGTCATCAAGTTTATACAGAAGTCTGTGCTTCCTGCCATTC
EST: gi|192324650|gb|FK018746.1|FK018746
EST:     AGCTATCCATGGCCTCACAAGGGAATTCTTAGTTCATATGATCACGCTTC                         GATTCGTCGTGGTCATCAAGTTTATACAGAAGTCTGTGCTTCCTGCCATTC
genomic: AGCTATCCATGGCCTCACAAGGGAATTCTTAGTTCATATGATCACGCTTCgtaagtttgg ... tcatgggcagGATTCGTCGTGGTCATCAAGTTTATACAGAAGTCTGTGCTTCCTGCCATTC
EST: gi|151408312|gb|EV278120.1|EV278120
EST:     AGCTATCCATGGCCTCGCAAGGGAATTCTTAGTTCATATGATCACGCTTC                         GATTCGTCGTGGTCATCAAGTTTATACAGAAGTCTGTGCTTCCTGCCATTC
genomic: AGCTATCCATGGCCTCACAAGGGAATTCTTAGTTCATATGATCACGCTTCgtaagtttgg ... tcatgggcagGATTCGTCGTGGTCATCAAGTTTATACAGAAGTCTGTGCTTCCTGCCATTC
EST: gi|151401029|gb|EV270843.1|EV270843
EST:     AGCTATCCATGGCCTCACAAGGGAATTCTTAGTTCATATGATCACGCTTC                         GATTCGTCGTGGTCATCAAGTTTATACAGAAGTCTGTGCTTCCTGCCATTC
genomic: AGCTATCCATGGCCTCACAAGGGAATTCTTAGTTCATATGATCACGCTTCgtaagtttgg ... tcatgggcagGATTCGTCGTGGTCATCAAGTTTATACAGAAGTCTGTGCTTCCTGCCATTC
EST: gi|151408267|gb|EV278075.1|EV278075
EST:     AGCTATCCATGGCCTCACAAGGGAATTCTTAGTTCATATGATCACGCTTC                         GATTCGTCGTGGTCATCGAGTTTATACAGAAGTCTGTGCTTCCTGCCATTC
genomic: AGCTATCCATGGCCTCACAAGGGAATTCTTAGTTCATATGATCACGCTTCgtaagtttgg ... tcatgggcagGATTCGTCGTGGTCATCAAGTTTATACAGAAGTCTGTGCTTCCTGCCATTC


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

ttaagtttatattaatatcaattcttaatgctttcaattaatttttcatgggcagGATTCGTCGTGGTCATCAAGTTTATACAGAAGTCTGTGCTTCCTGCCATTCTATGTCTTTGATATCGTATCGTGATTTGGTTGGTGTTGCTTATACAGAA
                                         tttttcat  CT-rich tract
     tttatattaatatcaa  TA-rich tract