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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

...aatagtagttatttatgttttgtgcattgctcaggagggttcagtttatgaaatccaaattctagcttctcttgtacttaacctgcatattttgtcacagTGACCTGGAATATTACCTGCACTTATTCTCAATTCCTGGCTCAAAAGGCACCAAGTTGCTGTGTTTCCCTCTCATCCTTCTATAATGACACAGTAGTAAA

Basic information

species Glycine max
transcript GLYMA06G22410.1
intron # 3
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GLYMA06G22410.1 (Glycine max), 3'ss of exon 3
lower sequence: GRMZM2G071970_T01 (Zea mays), 3'ss of exon 3
-aatagtagttatttatgttttgtgcattgctcaggagggttcagtttatgaaatccaaattctagcttctcttgtacttaacctgcatattttgtc-acagTGACCTGGAATATTACCTGCACTTATTCTCAATTCCTGGCTCAAAAGGCACCAAGTTGCTGTGTTTCCCTCTCATCCTTCTATAATGACACAGTAGTAAA
   || |      |  | ||  |   ||| |     | | | ||||||     ||  |  || ||||       || ||||||   |||  ||| ||  ||||||| |||||| | |||||||| ||||| ||||| || ||||| ||| | |||   |||||||| || |||||||| || |||||||||||| | || ||
ttctaatcacagatagtcttaggaaaatttccatacaagttgcagtttcgtctat--attttatagcactgagggttcttaacagacattctttatctgcagTGACATGGAATGTGACCTGCACATATTCCCAATTTCTTGCTCAGAAGACTCCATCCTGCTGTGTATCTCTCTCATCATTTTATAATGACACAATTGTGAA

upper sequence: GLYMA06G22410.1 (Glycine max), 3'ss of exon 3
lower sequence: Vv17s0000g05070.t01 (Vitis vinifera), 3'ss of exon 3
aatagtagttatttatgttttgtgcattgctcaggagggttcagtttatgaaatccaaa---ttctagcttctcttgtacttaacctgcatattttgtcacagTGACCTGGAATATTACCTGCACTTATTCTCAATTCCTGGCTCAAAAGGCACCAAGTTGCTGTGTTTCCCTCTCATCCTTCTATAATGACACAGTAGTAAA
 |   | |  |   |  ||  |   || | | |   | ||||    |||| | |  ||    |   |   | |     |  ||| || | | |  | |  ||||||| |||||| |||| ||||| ||||| |||||||||||||| ||| | || |  || ||||| ||  | ||||| ||||||||| ||||  |||||  
-aggatggcaagacacatt--gacaatggataatttgtgttcttaatatgcatttaaagagttctcaagatttaactaatctaatcttcctgtcctatggcagTGACTTGGAATGTTACTTGCACGTATTCACAATTCCTGGCTCAGAAGACGCCTACATGTTGTGTCTCATTGTCATCGTTCTATAATAACACTATAGTATC
















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|7796390|gb|AW781787.1|AW781787
EST:     ACCAACTGTATTTATTACCAATGACAAGAGGAGAACCACCCAAGCCATGA                         TGACCTGGAATATTACCTGCACTTATTCTCAATTCCTGGCTCAAAAGGCAC
genomic: ACCAACTGTATTTATTACCAATGACAAGAGGAGAACCACCCAAGCCATGAgtaagttagt ... tttgtcacagTGACCTGGAATATTACCTGCACTTATTCTCAATTCCTGGCTCAAAAGGCAC
EST: gi|7925487|gb|AW831513.1|AW831513
EST:     ACCAACTGTATTTATTACCAATGACAAGAGGAGAACCACCCAAGCCATGA                         TGACCTGGAATATTACCTGCACTTATTCTCAATTCCTGGCTCAAAAGGCAC
genomic: ACCAACTGTATTTATTACCAATGACAAGAGGAGAACCACCCAAGCCATGAgtaagttagt ... tttgtcacagTGACCTGGAATATTACCTGCACTTATTCTCAATTCCTGGCTCAAAAGGCAC


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

ttatgaaatccaaattctagcttctcttgtacttaacctgcatattttgtcacagTGACCTGGAATATTACCTGCACTTATTCTCAATTCCTGGCTCAAAAGGCACCAAGTTGCTGTGTTTCCCTCTCATCCTTCTATAATGACACAGTAGTAAA
                              acttaac  putative branch site (score: 3)
                                            ttttgtc  putative PPT
                                         atattttgt  TA-rich tract