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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

TGAACGGTGTGGGCAACAGGGAGCAAAGGCTCAACCTTTGGTTCGACCCCACCAAGGATTTTCACTCATACTCTATCTTCTGGAATCAACGTCAAGTTGTgtaagcacccattccccttcttaattatgcatattaaagtttaagtatttaatgtaatcatgtaactttagagttatggcatgtttgaggcgatggtcaa...

Basic information

species Glycine max
transcript GLYMA06G45860.1
intron # 3
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GLYMA06G45860.1 (Glycine max), 5'ss of exon 3
lower sequence: Vv12s0134g00160.t01 (Vitis vinifera), 5'ss of exon 3
TGAACGGTGTGGGCAACAGGGAGCAAAGGCTCAACCTTTGGTTCGACCCCACCAAGGATTTTCACTCATACTCTATCTTCTGGAATCAACGTCAAGTTGTgtaagcac-----ccattccccttcttaattatgcatattaaagtttaagtatttaatgtaatcatgtaactttagagttatggcatgtttgaggcgatggtcaa
| || |||||||||||||| || |||||  | ||||| |||||||||||||||||||| || ||||| ||| |  || | |||||||| || |||||||||||||| |     |  ||||| | | |   | |   | | || |  |  | |     ||   |||   | ||  |||   | ||  || ||  |||     |   
TCAATGGTGTGGGCAACAGAGAACAAAGATTGAACCTCTGGTTCGACCCCACCAAGGACTTCCACTCCTACACATTCATGTGGAATCAGCGCCAAGTTGTgtaagctctttctcttttcccttccctttctctttctctcaatgagtcggaaaaggctgggttca--cacctccagaaaaagggtgtgcttttggcatgtat---
















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|151409451|gb|EV279259.1|EV279259
EST:     ACCAAGGATTTTCACTCATACTCTATCTTCTGGAATCAACGTCAAGTTGT                         ATTTTTGGTGGATGAGACACCAATAAGGGTGCACACAAACATGGAGCACAA
genomic: ACCAAGGATTTTCACTCATACTCTATCTTCTGGAATCAACGTCAAGTTGTgtaagcaccc ... atgtgatcagATTTTTGGTGGATGAGACACCAATAAGGGTGCACACAAACATGGAGCACAA
EST: gi|18039092|gb|BM307386.1|BM307386
EST:     ACCAAGGATTTTCACTCATACTCTATCTTCTGGAATCAACGTCAAGTTGT                         ATTTTTGGTGGATGAGACACCAATAAGGGTGCACACAAACATGGAGCACAA
genomic: ACCAAGGATTTTCACTCATACTCTATCTTCTGGAATCAACGTCAAGTTGTgtaagcaccc ... atgtgatcagATTTTTGGTGGATGAGACACCAATAAGGGTGCACACAAACATGGAGCACAA
EST: gi|193376009|gb|FK339980.1|FK339980
EST:     TACTCTATCTTCTGGAATCAACGTCAAGTTGT                         ATTTTTGGTGGATGAGACACCAATAAGGGTGCACACAAACATGGAGCACAG
genomic: TACTCTATCTTCTGGAATCAACGTCAAGTTGTgtaagcaccc ... atgtgatcagATTTTTGGTGGATGAGACACCAATAAGGGTGCACACAAACATGGAGCACAA
EST: gi|6482519|gb|AW201776.1|AW201776
EST:     ACCAAGGATTTTCACTCATACTCTATCTTCTGGAATCAACGTCAAGTTGT                         ATTTTTGGTGGATGAGACACCAATAAGGGTGCACACAAACATGGAGCACAA
genomic: ACCAAGGATTTTCACTCATACTCTATCTTCTGGAATCAACGTCAAGTTGTgtaagcaccc ... atgtgatcagATTTTTGGTGGATGAGACACCAATAAGGGTGCACACAAACATGGAGCACAA
EST: gi|15201267|gb|BI424781.1|BI424781
EST:     CCAAGGATTTTCACTCATACTCTATCTTCTGGAAATCA-CGTCAAGTTGT                         ATTTTTGGTGGATGACACACCAATAAGGGTGCACACAAACATGGAGCACAA
genomic: CCAAGGATTTTCACTCATACTCTATCTTCTGGAA-TCAACGTCAAGTTGTgtaagcaccc ... atgtgatcagATTTTTGGTGGATGAGACACCAATAAGGGTGCACACAAACATGGAGCACAA
EST: gi|207727409|gb|GD705815.1|GD705815
EST:     ACCAAGGATTTTCACTCATACTCTATCTTCTGGAATCAACGTCAAGTTGT                         ATTTTTGGTGGATGAGACACCAATAAGGGTGCACACAAACATGGAGCACAA
genomic: ACCAAGGATTTTCACTCATACTCTATCTTCTGGAATCAACGTCAAGTTGTgtaagcaccc ... atgtgatcagATTTTTGGTGGATGAGACACCAATAAGGGTGCACACAAACATGGAGCACAA
EST: gi|17023921|gb|BM094955.1|BM094955
EST:     ACCAAGGATTTTCACTCATACTCTATCTTCTGGAATCAACGTCAAGTTGT                         ATTTTTGGTGGATGAGACACCAATAAGGGTGCACACAAACATGGAGCACAA
genomic: ACCAAGGATTTTCACTCATACTCTATCTTCTGGAATCAACGTCAAGTTGTgtaagcaccc ... atgtgatcagATTTTTGGTGGATGAGACACCAATAAGGGTGCACACAAACATGGAGCACAA
EST: gi|193609489|gb|FK564367.1|FK564367
EST:     ACCAAGGATTTTCACTCATACTCTATCTTCTGGAATCAACGTCAAGTTGT                         ATTTTTGGTGGATGAGACACCAATAAGGGTGC
genomic: ACCAAGGATTTTCACTCATACTCTATCTTCTGGAATCAACGTCAAGTTGTgtaagcaccc ... atgtgatcagATTTTTGGTGGATGAGACACCAATAAGGGTGC
EST: gi|15662471|gb|BI699842.1|BI699842
EST:     CTCATACTCTATCTTCTGGAATCAACGTCAAGTTGT                         ATTTTTGGTGGATGAGACACCAATAAGGGTGCACACAAACATGGAGCACAA
genomic: CTCATACTCTATCTTCTGGAATCAACGTCAAGTTGTgtaagcaccc ... atgtgatcagATTTTTGGTGGATGAGACACCAATAAGGGTGCACACAAACATGGAGCACAA
EST: gi|23733379|gb|BU764887.1|BU764887
EST:     ACCAAGGATTTTCACTCATACTCTATCTTCTGGAATCAACGTCAAGTTGT                         ATTTTTGGTGGATGAGACACCAATAAGGGTGCACACAAACATGGAGCACAA
genomic: ACCAAGGATTTTCACTCATACTCTATCTTCTGGAATCAACGTCAAGTTGTgtaagcaccc ... atgtgatcagATTTTTGGTGGATGAGACACCAATAAGGGTGCACACAAACATGGAGCACAA
EST: gi|51334887|gb|CO978753.1|CO978753
EST:     ACCAAGGATTTTCACTCATACTCTATCTTCTGGAATCAACGTCAAGTTGT                         ATTTTTGGTGGATGAGACACCAATAAGGGTGCACACAAACATGGAGCACAA
genomic: ACCAAGGATTTTCACTCATACTCTATCTTCTGGAATCAACGTCAAGTTGTgtaagcaccc ... atgtgatcagATTTTTGGTGGATGAGACACCAATAAGGGTGCACACAAACATGGAGCACAA
EST: gi|31305764|gb|CD390967.1|CD390967
EST:     GATTTTCACTCATACTCTATCTTCTGGAATCAACGTCAAGTTGT                         ATTTTTGGTGGATGAGACACCAATAAGGGTGCACACAAACATGGAGCACAA
genomic: GATTTTCACTCATACTCTATCTTCTGGAATCAACGTCAAGTTGTgtaagcaccc ... atgtgatcagATTTTTGGTGGATGAGACACCAATAAGGGTGCACACAAACATGGAGCACAA
EST: gi|24135343|gb|BU925853.1|BU925853
EST:     TCATACTCTATCTTCTGGAATCAACGTCAAGTTGT                         ATTTTTGGTGGATGAGACACCAATAAGGGTGCACACAAACATGGAGCACAA
genomic: TCATACTCTATCTTCTGGAATCAACGTCAAGTTGTgtaagcaccc ... atgtgatcagATTTTTGGTGGATGAGACACCAATAAGGGTGCACACAAACATGGAGCACAA
EST: gi|298168120|gb|HO013383.1|HO013383
EST:     ACCAAGGATTTTCACTCATACTCTATCTTCTGGAATCAACGTCAAGTTGT                         ATTTTTGGTGGATGAGACACCAATAAGGGTGCACACAAACATGGAGCACAA
genomic: ACCAAGGATTTTCACTCATACTCTATCTTCTGGAATCAACGTCAAGTTGTgtaagcaccc ... atgtgatcagATTTTTGGTGGATGAGACACCAATAAGGGTGCACACAAACATGGAGCACAA
EST: gi|192295505|gb|FG988079.1|FG988079
EST:     ACCAAGGATTTCCACTCATACTCTATCTTCTGGAATCAACGTCAAGTTGT                         ATTTTTGGTGGATGAGACACCAATAAGGGTGCACACAAACATGGAGCACAA
genomic: ACCAAGGATTTTCACTCATACTCTATCTTCTGGAATCAACGTCAAGTTGTgtaagcaccc ... atgtgatcagATTTTTGGTGGATGAGACACCAATAAGGGTGCACACAAACATGGAGCACAA
EST: gi|12772908|gb|BG237825.1|BG237825
EST:     ACCAAGGATTTTCACTCATACTCTATCTTCTGGAATCAACGTCAAGTTGT                         ATTTTTGGTGGATGAGACACCAATAAGGGTGCACACAAACATGGAGCACAA
genomic: ACCAAGGATTTTCACTCATACTCTATCTTCTGGAATCAACGTCAAGTTGTgtaagcaccc ... atgtgatcagATTTTTGGTGGATGAGACACCAATAAGGGTGCACACAAACATGGAGCACAA
EST: gi|27424358|gb|CA935878.1|CA935878
EST:     ACCAAGGATTTTCACTCATACTCTATCTTCTGGAATCAACGTCAAGTTGT                         ATTTTTGGTGGATGAGACACCAATAAGGGTGCACACAAACATGGAGCACAA
genomic: ACCAAGGATTTTCACTCATACTCTATCTTCTGGAATCAACGTCAAGTTGTgtaagcaccc ... atgtgatcagATTTTTGGTGGATGAGACACCAATAAGGGTGCACACAAACATGGAGCACAA
EST: gi|151395082|gb|EV264953.1|EV264953
EST:     ACCAAGGATTTTCACTCATACTCTATCTTCTGGAATCAACGTCAAGTTGT                         ATTTTTGGTGGATGAGACACCAATAAGGGTGCACACAAACATGGAGCACAA
genomic: ACCAAGGATTTTCACTCATACTCTATCTTCTGGAATCAACGTCAAGTTGTgtaagcaccc ... atgtgatcagATTTTTGGTGGATGAGACACCAATAAGGGTGCACACAAACATGGAGCACAA
EST: gi|26046084|gb|CA783420.1|CA783420
EST:     ACCAAGGATTTTCACTCATACTCTATCTTCTGGAATCAACGTCAAGTTGT                         ATTTTTGGTGGATGAGACACCAATAAGGGTGCACACAAACATGGAGCACAA
genomic: ACCAAGGATTTTCACTCATACTCTATCTTCTGGAATCAACGTCAAGTTGTgtaagcaccc ... atgtgatcagATTTTTGGTGGATGAGACACCAATAAGGGTGCACACAAACATGGAGCACAA
EST: gi|31561082|gb|CD486920.1|CD486920
EST:     ACCAAGGATTGTCACTCATACTCTATCTTCTGGAATCAACGTCAAGTTGT                         ATTTTTGGTGGATGAGACACCAATAAGGGTGCACACAAACATGGAGCACAA
genomic: ACCAAGGATTTTCACTCATACTCTATCTTCTGGAATCAACGTCAAGTTGTgtaagcaccc ... atgtgatcagATTTTTGGTGGATGAGACACCAATAAGGGTGCACACAAACATGGAGCACAA

Putative cis-regulatory sequences

 atgc intron ATGC exonic elements by Pertea et al.
 ATGC exon atgc putative intronic elements
 ATGC putative exonic elements identified for retained introns
        10        20        30        40        50        60        70        80        90        100       110       120       130       140       150       160       170       180       190       200       210       220 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
TGAACGGTGTGGGCAACAGGGAGCAAAGGCTCAACCTTTGGTTCGACCCCACCAAGGATTTTCACTCATACTCTATCTTCTGGAATCAACGTCAAGTTGTgtaagcacccattccccttcttaattatgcatattaaagtttaagtatttaatgtaatcatgtaactttagagttatggcatgtttgaggcgatggtcaa

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -ttcccct