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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtaaatctcaaaactttatatgtggcattcttccttctcttaactgtctccttttcttgtttcttttcttgcaaagtgcacatcatcatctttatgtccatctcacataaatctgttttcctcttgtgcagTCAGTTGATGTGATGGACTATTCTTTACTGGTTGGAGTGGATGAAGAAAAGCATGAGTTGGTTATTGGAATCATTGATTTCATGAGGCAGTATACTTGGG

Basic information

species Glycine max
transcript GLYMA16G01590.1
intron # 12
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GLYMA16G01590.1 (Glycine max), 3'ss of exon 12
lower sequence: LOC_Os08g34950.1 (Oryza sativa), 3'ss of exon 10
gtaaatctcaaaactttatatgtggcattcttccttctcttaactgtctccttttcttgtttcttttcttgcaa-agtgcacatcatcatctttatgtccatctcacataaatctgttttcctcttgtgcagTCAGTTGATGTGATGGACTATTCTTTACTGGTTGGAGTGGATGAAGAAAAGCATGAGTTGGTTATTGGAATCATTGATTTCATGAGGCAGTATACTTGGG
                                  ||      || | ||  |    ||  ||     |  | |  ||    |   || |||||    |    ||||  |||    || ||   ||  || ||  | ||||||||||||| || || || || || ||||| || || || || ||||| |||||| | ||||| |||||||| |||||||||||||| ||||
------------------------------agggtttatgagacaggctgataagatttattgcaggccagtagcagcattcgatat-atcttctcatatgactcat-taatgaagtcttgtcctcttgtagGGAATTGATGTGATGGATTACTCATTGCTTGTGGGAGTTGACGAGGAGAAACATGAATTGGTTCTGGGAATAATTGATTTTATGAGGCAGTATACATGGG

upper sequence: GLYMA16G01590.1 (Glycine max), 3'ss of exon 12
lower sequence: GRMZM2G153722_T01 (Zea mays), 3'ss of exon 10
gtaaatctcaaaactttatatgtggcattcttccttctcttaactgtctccttttcttgtttcttttcttgcaaagtgcacatcatcatctttatgtccatctcacataaatctgttttcctcttgtgcagTCAGTTGATGTGATGGACTATTCTTTACTGGTTGGAGTGGATGAAGAAAAGCATGAGTTGGTTATTGGAATCATTGATTTCATGAGGCAGTATACTTGGG
               | ||   |   | | |  |||||  ||||| |    |    || | | |||||||  ||              ||| || |   | |||   ||     | |  | | || | |||  | | ||||||||||||||||| || || || ||||| || || || || |||||  ||||  | ||||| |||||||| |||||||||||||| ||||
------------tgctgatgcttccaagtttatcttcttgtaactataggttacctttttctgttttcttataa--------------tctgtaggcttaactc-tgtag----gctcccatgtttttcagGGAATCGATGTGATGGACTATTCCTTGCTTGTGGGAGTCGACGAGGAGAAACATGAACTGGTCTTAGGAATTATTGATTTTATGAGGCAGTATACATGGG

upper sequence: GLYMA16G01590.1 (Glycine max), 3'ss of exon 12
lower sequence: Vv09s0002g00380.t01 (Vitis vinifera), 3'ss of exon 15
gtaaatctcaaaactttatatgtggcattcttccttctcttaactgtctccttttcttgtttcttttcttgcaaagtgcacatcatcatctttatgtccatctcacataaatctgttttcctcttgtgcagTCAGTTGATGTGATGGACTATTCTTTACTGGTTGGAGTGGATGAAGAAAAGCATGAGTTGGTTATTGGAATCATTGATTTCATGAGGCAGTATACTTGGG
|||| | |  ||||    | |||    | || ||       |  |||   || |||   |||           || |||   |   ||| || |||||    | |||| |  || ||           ||||| |||||||||||||| || || ||||||||||| ||||| || || ||||||||| | ||| | || ||||| || ||||||||||||||||| ||||
gtaagttttgaaaccgattgtgt----tgctcccaaagtcaatatgtaggctgttccaattttcaagtagattaaatgcttgtatccattttaatgtct-ctttacattatgctatt----------acagTCTGTTGATGTGATGGATTACTCATTACTGGTTGGGGTGGACGAGGAGAAGCATGAGCTAGTTCTCGGGATCATCGACTTCATGAGGCAGTATACATGGG

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|13791462|gb|BG654053.1|BG654053
EST:     CTAAACGATTGTTAGAGAGAGCTGTCTGGAATGACACTGGTTTTCTTGCT                         TCAGTTGATGTGATGGACTATTCTTTACTGGTTGGAGTGGATGAAGAAAAG
genomic: CTAAACGATTGTTAGAGAGAGCTGTCTGGAATGACACTGGTTTTCTTGCTgtaaatctca ... tcttgtgcagTCAGTTGATGTGATGGACTATTCTTTACTGGTTGGAGTGGATGAAGAAAAG
EST: gi|151410235|gb|EV280050.1|EV280050
EST:     CTAAACGATTGTTAGAGAGAGCTGTCTGGAATGACACTGGTTTTCTTGCT                         TCAGTTGATGTGATGGACTATTCTTTACTGGTTGGAGTGGATGAAGAAAAG
genomic: CTAAACGATTGTTAGAGAGAGCTGTCTGGAATGACACTGGTTTTCTTGCTgtaaatctca ... tcttgtgcagTCAGTTGATGTGATGGACTATTCTTTACTGGTTGGAGTGGATGAAGAAAAG
EST: gi|22930829|gb|BU547976.1|BU547976
EST:     CTAAACGATTGTTAGAGAGAGCTGTCTGGAATGACACTGGTTTTCTTGCT                         TCAGTTGATGTGATGGACTATTCTTTACTGGTTGGAGTGGATGAAGAAAAG
genomic: CTAAACGATTGTTAGAGAGAGCTGTCTGGAATGACACTGGTTTTCTTGCTgtaaatctca ... tcttgtgcagTCAGTTGATGTGATGGACTATTCTTTACTGGTTGGAGTGGATGAAGAAAAG
EST: gi|20814476|gb|BQ298954.1|BQ298954
EST:     CTAAACGATTGTTAGAGAGAGCTGTCTGGAATGACACTGGTTTTCTTGCT                         TCAGTTGATGTGATGGACTATTCTTTACTGGTTGGAGTGGATGAAGAAAAG
genomic: CTAAACGATTGTTAGAGAGAGCTGTCTGGAATGACACTGGTTTTCTTGCTgtaaatctca ... tcttgtgcagTCAGTTGATGTGATGGACTATTCTTTACTGGTTGGAGTGGATGAAGAAAAG
EST: gi|18733852|gb|BM527848.1|BM527848
EST:     CGAAAAGATTGTTAGAGAGAGCTGTCTGGAATGACACTGGTTTTCTTGCT                         TCAGTTGCTGTGATGGACTATTCTTTACTGGTTGGAGTGGATGAAGAGAAG
genomic: CTAAACGATTGTTAGAGAGAGCTGTCTGGAATGACACTGGTTTTCTTGCTgtaaatctca ... tcttgtgcagTCAGTTGATGTGATGGACTATTCTTTACTGGTTGGAGTGGATGAAGAAAAG
EST: gi|22523323|gb|BU082134.1|BU082134
EST:     CTAAACGATTGTTAGAGAGAGCTGTCTGGAATGACACTGGTTTTCTTGCT                         TCAGTTGATGTGATGGACTATTCTTTACTGGTTGGA
genomic: CTAAACGATTGTTAGAGAGAGCTGTCTGGAATGACACTGGTTTTCTTGCTgtaaatctca ... tcttgtgcagTCAGTTGATGTGATGGACTATTCTTTACTGGTTGGA
EST: gi|22523233|gb|BU082044.1|BU082044
EST:     CTAAACGATTGTTAGAGAGAGCTGTCTGGAATGACACTGGTTTTCTTGCT                         TCAGTTGATGTGATGGACTATTCTTTACTGGTTGGAGTGGATGAAGAAAAG
genomic: CTAAACGATTGTTAGAGAGAGCTGTCTGGAATGACACTGGTTTTCTTGCTgtaaatctca ... tcttgtgcagTCAGTTGATGTGATGGACTATTCTTTACTGGTTGGAGTGGATGAAGAAAAG


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

tgcacatcatcatctttatgtccatctcacataaatctgttttcctcttgtgcagTCAGTTGATGTGATGGACTATTCTTTACTGGTTGGAGTGGATGAAGAAAAGCATGAGTTGGTTATTGGAATCATTGATTTCATGAGGCAGTATACTTGGG
                       atctcac  putative branch site (score: 3)
                                   tctgttttcctcttgt  putative PPT
           atctttat  TA-rich tract