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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

...cattttccttaatatagtattgtagctaatgtcataagatgtgttgaacttgatccatacttttatttataatggttgagtgtggctttgaaccttgcagGTGGCAATGACACATCCGATGGCAGTCACTAACTGCAATATTGATATGGAAAGTTTACTCTCTGACCAGAACCGAAGCATTGCCACACTTGCCATTACTA

Basic information

species Glycine max
transcript GLYMA11G12610.1
intron # 8
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GLYMA11G12610.2 (Glycine max), 3'ss of exon 8
lower sequence: AT4G34450.1 (Arabidopsis thaliana), 3'ss of exon 7
-------------------------------cattttccttaatatagtattgtagctaatgtcataagatgtgttg--aacttgatcc-----atacttttatttataatggt----tgagtgtggctttgaaccttgcagGTGGCAATGACACATCCGATGGCAGTCACTAACTGCAATATTGATATGGAAAGTTTACTCTCTGACCAGAACCGAAGCATTGCCACACTTGCCATTACTA
                               ||||  |    | ||  | || || ||| | |    ||||   |    | ||| |||      ||      || | | |  ||    | |       ||||||||   ||||| |||||||| ||||| ||||| ||||| |||||||| ||||||||||| |||||| ||||||| || ||  |||||||||| ||||| || || || |
gtttgcaatgctttcaactgttctctttgtacattgacaccgaaatgatgtttta-ctattctgggtagattcatcattacctttatcatgaggatgaggagatatttcactgtatactaaacacaagtttgaacc--acagGTTGCAATGACTCATCCTATGGCTGTCACCAACTGCAACATTGATATGGAGAGTTTAATCTCTGATCAAAATAGAAGCATTGCTACACTCGCAATAACCA

upper sequence: GLYMA11G12610.2 (Glycine max), 3'ss of exon 8
lower sequence: Vv03s0063g02450.t01 (Vitis vinifera), 3'ss of exon 8
cattttccttaatatagtattgtagctaatgtcataagatg-tgttgaacttgatc-catacttttatttataatggttgagtgtggctttgaa--ccttgcagGTGGCAATGACACATCCGATGGCAGTCACTAACTGCAATATTGATATGGAAAGTTTACTCTCTGACCAGAACCGAAGCATTGCCACACTTGCCATTACTA
  |  | || | | |   | | ||   | | |  |||  || | |||| | ||||  || | ||||  | |||||  |  |   |   ||||||  | ||||||||||||||||||||||| ||||| || ||||||||||| || |||||||||||  || | |||||||||||| |||||||||| ||||| || || || |
-gtgatgctcattttg--actataatcattttgctaacctgattttgaccatgataacaaaatttttataataataat-aatcttaaatttgaattctttgcagGTGGCAATGACACATCCAATGGCTGTAACTAACTGCAACATAGATATGGAAAGCCTAATTTCTGACCAGAACAGAAGCATTGCAACACTGGCAATCACCA

upper sequence: GLYMA11G12610.2 (Glycine max), 3'ss of exon 8
lower sequence: PP1S15_298V6.2 (Physcomitrella patens), 3'ss of exon 7
cattttccttaatatagtattgtagctaatgtcataagatgtgttgaacttgatccatacttttattt-ataatggttgagtgtggctttgaa---ccttgcagGTGGCAATGACACATCCGATGGCAGTCACTAACTGCAATATTGATATGGAAAGTTTACTCTCTGACCAGAACCGAAGCATTGCCACACTTGCCATTACTA
 |    | || |  |   | |||     |  || | | || |||   |  |  |   | | ||| ||  |  | | |||||  |  ||  |     | || ||||| |||  ||| || ||  |||||||  | |||||||| ||||| ||||||||| |  | |||||||| ||||| |||||||| || |||||||||||||
-aggagcattgaagt--cactgttctccacatc-tcatatctgtcagaactatttattccatttcttccactaagcttgaggtttcctggggttgtctttccagGTTGCACAGACCCAGCCATTGGCAGTTGCCAACTGCAACATTGACATGGAAAGTCTCATATCTGACCAAAACCGCAGCATTGCTACTCTTGCCATTACTA

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|12773370|gb|BG238297.1|BG238297
EST:     GTTCGTCCAAGCCAGTCTTGAGATTTGCTGCTGTCCGCACCTTGAACAAG                         GTGGCAATGACACATCCGATGGCAGTCACTAACTGCAATATTGATATGGAA
genomic: GTTCGTCCAAGCCAGTCTTGAGATTTGCTGCTGTCCGCACCTTGAACAAGgttaaccttt ... aaccttgcagGTGGCAATGACACATCCGATGGCAGTCACTAACTGCAATATTGATATGGAA
EST: gi|208329864|gb|GE128897.1|GE128897
EST:     GTTCGTCCAAGCCAGTCTTGAGATTTGCTGCTGTCCGCACCTTGAACAAG                         GTGGCAATGACACATCCGATGGCAGTCACTAACTGCAATATTGATATGGAA
genomic: GTTCGTCCAAGCCAGTCTTGAGATTTGCTGCTGTCCGCACCTTGAACAAGgttaaccttt ... aaccttgcagGTGGCAATGACACATCCGATGGCAGTCACTAACTGCAATATTGATATGGAA
EST: gi|193542575|gb|FK499276.1|FK499276
EST:     GTTCGTCCAAGCCAGTCTTGAGATTTGCTGCTGTCCGCACCTTGAACAAG                         GTGGCAATGACACATCCGATGGCAGTCACTAACTGCAATATTGATATGGAA
genomic: GTTCGTCCAAGCCAGTCTTGAGATTTGCTGCTGTCCGCACCTTGAACAAGgttaaccttt ... aaccttgcagGTGGCAATGACACATCCGATGGCAGTCACTAACTGCAATATTGATATGGAA
EST: gi|208154835|gb|GD957596.1|GD957596
EST:     GTTCGTCCAAGCCAGTCTTGAGATTTGCTGCTGTCCGCACCTTGAACAAG                         GTGGCAATGACACATCCGATGGCAGTCACTAACTGCAATATTGATATGGAA
genomic: GTTCGTCCAAGCCAGTCTTGAGATTTGCTGCTGTCCGCACCTTGAACAAGgttaaccttt ... aaccttgcagGTGGCAATGACACATCCGATGGCAGTCACTAACTGCAATATTGATATGGAA


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

gaacttgatccatacttttatttataatggttgagtgtggctttgaaccttgcagGTGGCAATGACACATCCGATGGCAGTCACTAACTGCAATATTGATATGGAAAGTTTACTCTCTGACCAGAACCGAAGCATTGCCACACTTGCCATTACTA
  acttgat  putative branch site (score: 5)
       atccatacttttattt  TA-rich tract