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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gttggaattttacatcatgtgcttagtagattttattatgttctttctgaaatcaatgaaattaatagttttatatcctttatgtggcagCTGAGAATGATCCACATGATGGCAAAAGAAAATGTGAGACATTATGGCCAATATTTAAGATTGCACACCAGAAGAGCCGCTACATATTTGACCTCTACCA

Basic information

species Glycine max
transcript GLYMA05G28440.2
intron # 3
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GLYMA05G28440.2 (Glycine max), 3'ss of exon 3
lower sequence: GRMZM2G053801_T01 (Zea mays), 3'ss of exon 2
----gttggaattttacatcatgtgcttagtagattttattatgttctttctgaaatcaatgaaattaatagttttatatcctttatgtggcagCTGAGAATGATCCACATGATGGCAAAAGAAAATGTGAGACATTATGGCCAATATTTAAGATTGCACACCAGAAGAGCCGCTACATATTTGACCTCTACCA
    |    ||   |   | | |  || | ||  |  | | |  |  || |||  |   | ||   || ||   ||||  |||  |||   ||||||| ||||||||||||||||| || ||||| |||||  |  | ||||| || ||    ||| | || || | |||||||||||||| ||| || ||| |
gtatgcacaaacggttattgaggcactcactac-tgatgtcagttgtttcctggcac--aggattgtactaacgttatgccctc-atg---cagCTGAAAATGATCCACATGATGGGAAGAGAAAGTGTGAAGCTCTCTGGCCTATTTTCCGTATTTCTCATCAAAGGAGCCGCTACATATATGATCTTTACTA

upper sequence: GLYMA05G28440.2 (Glycine max), 3'ss of exon 3
lower sequence: GRMZM2G070451_T01 (Zea mays), 3'ss of exon 1
---------gttggaattttacatcatgtgcttagta--gattttatta--tgttctttctgaaatcaatgaaattaatagttttatatcctttatgtggcagCTGAGAATGATCCACATGATGGCAAAAGAAAATGTGAGACATTATGGCCAATATTTAAGATTGCACACCAGAAGAGCCGCTACATATTTGACCTCTACCA
         | |||   || |  | | |  ||   ||  ||| ||| |   | ||  |||   |    | ||   || || |  |||  |||| |||   ||||||| ||||||||||||||||| || ||||| |||||  |  | ||||| || ||    ||| | || || | |||||||||||||| |||  | ||| |
gtaggcacagatggctattcatttgaggcactcgctactgatgttagttgttatttattccctagcacaggatcgtactaatgctatgccctt-atg---cagCTGAAAATGATCCACATGATGGGAAGAGAAAGTGTGAAGCTCTCTGGCCTATTTTCCGCATTTCTCATCAAAGGAGCCGCTACATATATGATGTTTACTA

upper sequence: GLYMA05G28440.2 (Glycine max), 3'ss of exon 3
lower sequence: GRMZM2G020728_T01 (Zea mays), 3'ss of exon 2
-------------gttggaattttacatcatgtgct--tagtagattttattatgttctttctgaaatcaatgaaattaatagttttatatcctttatgtggcagCTGAGAATGATCCACATGATGGCAAAAGAAAATGTGAGACATTATGGCCAATATTTAAGATTGCACACCAGAAGAGCCGCTACATATTTGACCTCTACCA
             | |     |||    |||   ||  |  |     || |||| || ||||  |   ||  ||   || ||    |||  |||  |||   ||||||| ||||||||||||||||| || ||||| |||||  |  | ||||| || ||    ||| | || || | ||||||||||||||  || || ||  |
gtaggcacatacggctattcatttgaggcattcactactgatgtcagttgttattttatttcctagcacag-gatcgtactaacgctatgccctc-atg---cagCTGAAAATGATCCACATGATGGAAAGAGAAAGTGTGAAGCTCTCTGGCCTATTTTCCGCATTTCTCATCAAAGGAGCCGCTACATATACGATCTTTATTA

upper sequence: GLYMA05G28440.2 (Glycine max), 3'ss of exon 3
lower sequence: GRMZM2G129979_T01 (Zea mays), 3'ss of exon 2
gttggaattttacatcatgtgcttagtagattttattatgttctttctgaaatcaatgaaattaatagttttatatcctttatgtggcagCTGAGAATGATCCACATGATGGCAAAAGAAAATGTGAGACATTATGGCCAATATTTAAGATTGCACACCAGAAGAGCCGCTACATATTTGACCTCTACCA
                                 ||    ||| ||||| |   ||  ||   |||||   | ||   ||  |||   ||||||| ||||||||||||||||| || ||||| |||||  |  | ||||| || ||    ||| | || || | ||||| || ||||| ||  || ||| |
--------------------------------gtaagtcgttatttcttagcacag-gattgtaataacgtcatgctctc-atg---cagCTGAAAATGATCCACATGATGGGAAGAGAAAGTGTGAAGCTCTCTGGCCTATTTTCTGTATTTCTCATCAAAGGAGCCACTTCATATATGGTCTTTACTA

upper sequence: GLYMA05G28440.2 (Glycine max), 3'ss of exon 3
lower sequence: GRMZM2G174792_T01 (Zea mays), 3'ss of exon 8
gttggaattttacatcatgtgcttagtagattttattatgttctttctgaaatcaatgaaattaatagttttatatcctttatgtggcagCTGAGAATGATCCACATGATGGCAAAAGAAAATGTGAGACATTATGGCCAATATTTAAGATTGCACACCAGAAGAGCCGCTACATATTTGACCTCTACCA
                                 ||    ||| ||||  |   ||  ||   |||||     ||   ||    ||| ||||||| ||||||||||||||||| || ||||| |||||  |  | ||||| || ||    ||| | || || | ||||| || ||||| ||| || ||| |
--------------------------------gtaagtcgttatttcctagcacag-gattgtaataacgccatgctctc---gtg-cagCTGAAAATGATCCACATGATGGGAAGAGAAAGTGTGAAGCTCTCTGGCCTATTTTCCGTATTTCTCATCAAAGGAGCCACTTCATATATGATCTTTACTA

upper sequence: GLYMA05G28440.2 (Glycine max), 3'ss of exon 3
lower sequence: GRMZM2G095670_T02 (Zea mays), 3'ss of exon 2
------------gttggaattttacatcatgtgc--ttagtagattttattatgttctttctgaaatcaatgaaattaatagttttatatcctttatgtggcagCTGAGAATGATCCACATGATGGCAAAAGAAAATGTGAGACATTATGGCCAATATTTAAGATTGCACACCAGAAGAGCCGCTACATATTTGACCTCTACCA
            | |   | |||    ||   ||   |  |     || |||| |  || ||   |   | ||   || ||    |||  |||  |||   ||||||| ||||||||||||||||| || ||||| |||||  |  | ||||| || ||    ||| | || || | ||||||||||||||  || || ||| |
gtaggcacatacgctattaatttgaggcactcgccactgatgtcagttgttatttatttcctagcac--aggatcgtactaacgctatgccctc-atg---cagCTGAAAATGATCCACATGATGGGAAGAGAAAGTGTGAAGCTCTCTGGCCTATTTTCCGCATTTCTCATCAAAGGAGCCGCTACATATACGATCTTTACTA

upper sequence: GLYMA05G28440.2 (Glycine max), 3'ss of exon 3
lower sequence: GRMZM2G018464_T01 (Zea mays), 3'ss of exon 6
gttggaattttacatcatgtgcttagtagattttattatgttctttctgaaatcaatgaaattaatagttttatatcctttatgtggcagCTGAGAATGATCCACATGATGGCAAAAGAAAATGTGAGACATTATGGCCAATATTTAAGATTGCACACCAGAAGAGCCGCTACATATTTGACCTCTACCA
                                 ||     || ||||  |   ||| ||   |||||     ||   ||  |||   ||||||| ||||||||||||||||| || ||||| |||||  |  | ||||| ||  |    ||| | || || | ||||| || ||||| ||  || ||| |
--------------------------------gtaagtctttatttcctagcacaa-gattgtaataacgccatgctctc-atg---cagCTGAAAATGATCCACATGATGGGAAGAGAAAGTGTGAAGCTCTCTGGCCTATTATCTGTATTTCTCATCAAAGGAGCCACTTCATATATGGTCTTTACTA

upper sequence: GLYMA05G28440.2 (Glycine max), 3'ss of exon 3
lower sequence: GRMZM2G099007_T01 (Zea mays), 3'ss of exon 1
----gttggaattttacatcatgtgcttagtagattttattatgttctttctgaaatcaatgaaattaatagttttatatcctttatgtggcagCTGAGAATGATCCACATGATGGCAAAAGAAAATGTGAGACATTATGGCCAATATTTAAGATTGCACACCAGAAGAGCCGCTACATATTTGACCTCTACCA
    |     ||  |   | |    || | ||  |  | | |  |  || |||  |   | ||   || ||   ||||  |||  |||   ||||||| ||||||||||||||||| || ||||| |||||  |  | ||||| || ||    ||| | || || | |||||||||||||| ||| || ||| |
gtatgcacagatggttattgagacactcactac-tgatgtcagttgtttcctggcac--aggattgtactaacgttatgccctc-atg---cagCTGAAAATGATCCACATGATGGAAAGAGAAAGTGTGAAGCGCTCTGGCCTATTTTCCGTATTTCTCATCAAAGGAGCCGCTACATATATGATCTTTACTA

upper sequence: GLYMA05G28440.2 (Glycine max), 3'ss of exon 3
lower sequence: Vv05s0020g01520.t01 (Vitis vinifera), 3'ss of exon 2
--------gttggaattttacatcatgtgcttagta--gattttattatgttctttctgaaatcaatgaaattaatagttttat-atcctttatgt----ggcagCTGAGAATGATCCACATGATGGCAAAAGAAAATGTGAGACATTATGGCCAATATTTAAGATTGCACACCAGAAGAGCCGCTACATATTTGACCTCTACCA
         ||    |  | |||   |  || | |   |  ||| |    |  || ||||| | | | ||| ||| | |   |   | || | | |      ||||||| ||||| ||||||||||| || |||||||||||| || ||||||| || || || || ||||| ||||||||||| || || ||||| || |||||
gttattctctttttctcatgcatacagctctgaatgttgtctttgtcgcttgtttgctgaactta-taaaactaacaatgacaccgttctatgtcttttgaacagCTGAAAATGACCCACATGATGGTAAGAGAAAATGTGAGGCACTATGGCCGATTTTCAAAATAGCACATCAGAAGAGCCGTTATATTTTTGATCTTTACCA

upper sequence: GLYMA05G28440.2 (Glycine max), 3'ss of exon 3
lower sequence: PP1S22_313V6.2 (Physcomitrella patens), 3'ss of exon 1
--------gttggaatttta-catcatgtgcttagtagattt-tattatgttctttctgaaatcaatgaaattaatagttttatatcctttatgtg--gcagCTGAGAATGATCCACATGATGGCAAAAGAAAATGTGAGACATTATGGCCAATATTTAAGATTGCACACCAGAAGAGCCGCTACATATTTGACCTCTACCA
         | | || || | ||   ||   ||   || ||  | || | |      ||| ||   |    |   |    | |  |  |||||| |  |||||||| |||||  | ||||| ||||| || ||||||||| | || ||||||||||| |||||  |||||||||||||||| ||||| | ||| || |   |
atgcttctatcgtaacttaagcaggttggttttcacaggttgatgttttatcacggttgagatttctagtgtc--tgacatgaatttttttatgggatgcagCTGAAAATGAGACTCATGAGGGCAAGAGGAAATGTGAGGCTTTGTGGCCAATATTCAAGATCTCACACCAGAAGAGCCGTTACATTTATGATCTATTTTA

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|193518335|gb|FK477418.1|FK477418
EST:     TTGAGCCTACACTCCGTGAACTTCAAGCAAAGATGAGGGAAG                         CTGAGAATGATCCACATGATGGCAAAAGAAAATGTGAGACA-TATGGCCAA
genomic: TTGAGCCTACACTCCGTGAACTTCAAGCAAAGATGAGGGAAGgttggaattt ... tatgtggcagCTGAGAATGATCCACATGATGGCAAAAGAAAATGTGAGACATTATGGCCAA
EST: gi|151409939|gb|EV279747.1|EV279747
EST:     CTTCAAGCAAAGATGAGGGAAG                         CTGAGAATGATCCACATGATGGCAAAAGAAAATGTGAGACATTATGGCCAA
genomic: CTTCAAGCAAAGATGAGGGAAGgttggaattt ... tatgtggcagCTGAGAATGATCCACATGATGGCAAAAGAAAATGTGAGACATTATGGCCAA
EST: gi|193328661|gb|FK294793.1|FK294793
EST:     GGAATTGATTGAGCCTACACTCCGTGAACTTCAAGCAAAGATGAGGGAAG                         CTGAGAATGATCCACATGATGGCAAAAGAAAATGTGAGACATTATGGCCAA
genomic: GGAATTGATTGAGCCTACACTCCGTGAACTTCAAGCAAAGATGAGGGAAGgttggaattt ... tatgtggcagCTGAGAATGATCCACATGATGGCAAAAGAAAATGTGAGACATTATGGCCAA
EST: gi|193422245|gb|FK389690.1|FK389690
EST:     TACACTCCGTGAACTTCAAGCAAAGATGAGGGAAG                         CTGAGAATGATCCACATGATGGCAAAAGAAAATGTGAGACATTATGGCCAA
genomic: TACACTCCGTGAACTTCAAGCAAAGATGAGGGAAGgttggaattt ... tatgtggcagCTGAGAATGATCCACATGATGGCAAAAGAAAATGTGAGACATTATGGCCAA
EST: gi|209703736|gb|BW656869.1|BW656869
EST:     GGAATTGATTGAGCCTACACTCCGTGAACTTCAAGCAAAGATGAGGGAAG                         CTGAGAATGATCCACATGATGGCAAAAGAAAATGTGAGACATTATGGCCAA
genomic: GGAATTGATTGAGCCTACACTCCGTGAACTTCAAGCAAAGATGAGGGAAGgttggaattt ... tatgtggcagCTGAGAATGATCCACATGATGGCAAAAGAAAATGTGAGACATTATGGCCAA
EST: gi|193536166|gb|FK488314.1|FK488314
EST:     TTGAGCCTACACTCCGTGAACTTCAAGCAAAGATGAGGGAAG                         CTGAGAATGATCCACATGATGGCAAAAGAAAATGTGAGACA-TATGGCCAA
genomic: TTGAGCCTACACTCCGTGAACTTCAAGCAAAGATGAGGGAAGgttggaattt ... tatgtggcagCTGAGAATGATCCACATGATGGCAAAAGAAAATGTGAGACATTATGGCCAA
EST: gi|207779118|gb|GD754148.1|GD754148
EST:     GGAATTGATTGAGCCTACACTCCGTGAACTTCAAGCAAAGATGAGGGAAG                         CTGAGAATGATCCACA
genomic: GGAATTGATTGAGCCTACACTCCGTGAACTTCAAGCAAAGATGAGGGAAGgttggaattt ... tatgtggcagCTGAGAATGATCCACA
EST: gi|208051273|gb|GD846776.1|GD846776
EST:     GGAATTGATTGAGCCTACACTCCGTGAACTTTAAGCAAAGATGAGGGAAG                         CTGAGAATGATCC
genomic: GGAATTGATTGAGCCTACACTCCGTGAACTTCAAGCAAAGATGAGGGAAGgttggaattt ... tatgtggcagCTGAGAATGATCC


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

ttatgttctttctgaaatcaatgaaattaatagttttatatcctttatgtggcagCTGAGAATGATCCACATGATGGCAAAAGAAAATGTGAGACATTATGGCCAATATTTAAGATTGCACACCAGAAGAGCCGCTACATATTTGACCTCTACCA
                        aattaat  putative branch site (score: 3)
                                      tatccttt  putative PPT
              aaatcaatgaaattaa  TA-rich tract