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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gttggaattttatatgtgatacttgcctttctagattttattgtgttctttctgaaacccttgaacttaattgttttgcattccttatgtggcagCTGAGAACGATCCACATGATGGCAAGAGAAACTGTGAGACATTATGGCCTATATTTAAGATTGCACACCAGAAGAGCCGCTACATATTTGACCTCTATCA

Basic information

species Glycine max
transcript GLYMA07G15700.1
intron # 2
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GLYMA07G15700.1 (Glycine max), 3'ss of exon 2
lower sequence: GRMZM2G053801_T01 (Zea mays), 3'ss of exon 2
----gttggaattttatatgtgatacttgcctttctagattttattgtgttctttctgaaacccttgaacttaattgttttgcattccttatgtggcagCTGAGAACGATCCACATGATGGCAAGAGAAACTGTGAGACATTATGGCCTATATTTAAGATTGCACACCAGAAGAGCCGCTACATATTTGACCTCTATCA
    |    ||   |   || |  |||  |   |   ||| | | | ||||   |   | |   ||| ||| |   ||| |||   ||| |||   ||||||| || |||||||||||||| |||||||| |||||  |  | |||||||| ||    ||| | || || | |||||||||||||| ||| || ||  |
gtatgcacaaacggttattgaggcactcactact---gatgtcagt-tgtttcctggcacaggattgtactaa--cgttatgc---cctcatg---cagCTGAAAATGATCCACATGATGGGAAGAGAAAGTGTGAAGCTCTCTGGCCTATTTTCCGTATTTCTCATCAAAGGAGCCGCTACATATATGATCTTTACTA

upper sequence: GLYMA07G15700.1 (Glycine max), 3'ss of exon 2
lower sequence: GRMZM2G070451_T01 (Zea mays), 3'ss of exon 1
---------gttggaattttatatgtgatacttgcctttctagattttattgt-gttctttctgaaacccttgaacttaattgttttgcattccttatgtggcagCTGAGAACGATCCACATGATGGCAAGAGAAACTGTGAGACATTATGGCCTATATTTAAGATTGCACACCAGAAGAGCCGCTACATATTTGACCTCTATCA
         | |||   || || || |  ||| ||  | ||    ||  ||||  ||  |||   | | |  || | || |  |  |     |||||||   ||||||| || |||||||||||||| |||||||| |||||  |  | |||||||| ||    ||| | || || | |||||||||||||| |||  | ||  |
gtaggcacagatggctattcatttgaggcactcgc--tactgatgttagttgttatttattccctagcacaggatcgtactaatgctatgc-ccttatg---cagCTGAAAATGATCCACATGATGGGAAGAGAAAGTGTGAAGCTCTCTGGCCTATTTTCCGCATTTCTCATCAAAGGAGCCGCTACATATATGATGTTTACTA

upper sequence: GLYMA07G15700.1 (Glycine max), 3'ss of exon 2
lower sequence: GRMZM2G020728_T01 (Zea mays), 3'ss of exon 2
-------gttggaattttatatgtgatacttgcctttctagattttattgtgttctt--tctgaaacccttgaacttaattgttttgcattccttatgtggcagCTGAGAACGATCCACATGATGGCAAGAGAAACTGTGAGACATTATGGCCTATATTTAAGATTGCACACCAGAAGAGCCGCTACATATTTGACCTCTATCA
         |     | |  || |||  | | |  | ||    |   ||||  | ||  |    | | |  || | || |     |     ||| |||   ||||||| || |||||||||||||| |||||||| |||||  |  | |||||||| ||    ||| | || || | ||||||||||||||  || || ||| |
gtaggcacatacggctattcatttgaggcattcactactgatgtcagttgttattttatttcctagcacaggatcgtactaacgctatgc-cctcatg---cagCTGAAAATGATCCACATGATGGAAAGAGAAAGTGTGAAGCTCTCTGGCCTATTTTCCGCATTTCTCATCAAAGGAGCCGCTACATATACGATCTTTATTA

upper sequence: GLYMA07G15700.1 (Glycine max), 3'ss of exon 2
lower sequence: GRMZM2G129979_T01 (Zea mays), 3'ss of exon 2
gttggaattttatatgtgatacttgcctttctagattttattgtgttctttctgaaacccttgaacttaattgttttgcattccttatgtggcagCTGAGAACGATCCACATGATGGCAAGAGAAACTGTGAGACATTATGGCCTATATTTAAGATTGCACACCAGAAGAGCCGCTACATATTTGACCTCTATCA
                                      ||    ||| ||||| |  | |  ||   ||||    |     || | |||   ||||||| || |||||||||||||| |||||||| |||||  |  | |||||||| ||    ||| | || || | ||||| || ||||| ||  || ||  |
-------------------------------------gtaagtcgttatttcttag-cacaggattgtaataacgtcatgctc-tcatg---cagCTGAAAATGATCCACATGATGGGAAGAGAAAGTGTGAAGCTCTCTGGCCTATTTTCTGTATTTCTCATCAAAGGAGCCACTTCATATATGGTCTTTACTA

upper sequence: GLYMA07G15700.1 (Glycine max), 3'ss of exon 2
lower sequence: GRMZM2G174792_T01 (Zea mays), 3'ss of exon 8
gttggaattttatatgtgatacttgcctttctagattttattgtgttctttctgaaacccttgaacttaattgttttgcattccttatgtggcagCTGAGAACGATCCACATGATGGCAAGAGAAACTGTGAGACATTATGGCCTATATTTAAGATTGCACACCAGAAGAGCCGCTACATATTTGACCTCTATCA
                                      ||    ||| ||||  |  | |  ||   ||||          ||     ||| ||||||| || |||||||||||||| |||||||| |||||  |  | |||||||| ||    ||| | || || | ||||| || ||||| ||| || ||  |
-------------------------------------gtaagtcgttatttcctag-cacaggattgtaataacgccatgctctc---gtg-cagCTGAAAATGATCCACATGATGGGAAGAGAAAGTGTGAAGCTCTCTGGCCTATTTTCCGTATTTCTCATCAAAGGAGCCACTTCATATATGATCTTTACTA

upper sequence: GLYMA07G15700.1 (Glycine max), 3'ss of exon 2
lower sequence: GRMZM2G095670_T02 (Zea mays), 3'ss of exon 2
--------gttggaattttatatgtgatacttgcctttctagattttattgt-gttctttctgaaacccttgaacttaattgttttgcattccttatgtggcagCTGAGAACGATCCACATGATGGCAAGAGAAACTGTGAGACATTATGGCCTATATTTAAGATTGCACACCAGAAGAGCCGCTACATATTTGACCTCTATCA
         |  |   || || || |  ||| |||   ||    |   ||||  ||  ||    | | |  || | || |     |     ||| |||   ||||||| || |||||||||||||| |||||||| |||||  |  | |||||||| ||    ||| | || || | ||||||||||||||  || || ||  |
gtaggcacatacgctattaatttgaggcactcgcca--ctgatgtcagttgttatttatttcctagcacaggatcgtactaacgctatgc-cctcatg---cagCTGAAAATGATCCACATGATGGGAAGAGAAAGTGTGAAGCTCTCTGGCCTATTTTCCGCATTTCTCATCAAAGGAGCCGCTACATATACGATCTTTACTA

upper sequence: GLYMA07G15700.1 (Glycine max), 3'ss of exon 2
lower sequence: GRMZM2G018464_T01 (Zea mays), 3'ss of exon 6
gttggaattttatatgtgatacttgcctttctagattttattgtgttctttctgaaacccttgaacttaattgttttgcattccttatgtggcagCTGAGAACGATCCACATGATGGCAAGAGAAACTGTGAGACATTATGGCCTATATTTAAGATTGCACACCAGAAGAGCCGCTACATATTTGACCTCTATCA
                                     | | | | |  || ||  | | |  ||   ||||          || | |||   ||||||| || |||||||||||||| |||||||| |||||  |  | ||||||||  |    ||| | || || | ||||| || ||||| ||  || ||  |
------------------------------------gtaagtctttatttcct--agcacaagattgtaataacgccatgctc-tcatg---cagCTGAAAATGATCCACATGATGGGAAGAGAAAGTGTGAAGCTCTCTGGCCTATTATCTGTATTTCTCATCAAAGGAGCCACTTCATATATGGTCTTTACTA

upper sequence: GLYMA07G15700.1 (Glycine max), 3'ss of exon 2
lower sequence: GRMZM2G099007_T01 (Zea mays), 3'ss of exon 1
----gttggaattttatatgtgatacttgcctttctagattttattgtgttctttctgaaacccttgaacttaattgttttgcattccttatgtggcagCTGAGAACGATCCACATGATGGCAAGAGAAACTGTGAGACATTATGGCCTATATTTAAGATTGCACACCAGAAGAGCCGCTACATATTTGACCTCTATCA
    |     ||  |   || || |||  |   |   ||| | | | ||||   |   | |   ||| ||| |   ||| |||   ||| |||   ||||||| || |||||||||||||| |||||||| |||||  |  | |||||||| ||    ||| | || || | |||||||||||||| ||| || ||  |
gtatgcacagatggttattgagacactcactact---gatgtcagt-tgtttcctggcacaggattgtactaa--cgttatgc---cctcatg---cagCTGAAAATGATCCACATGATGGAAAGAGAAAGTGTGAAGCGCTCTGGCCTATTTTCCGTATTTCTCATCAAAGGAGCCGCTACATATATGATCTTTACTA

upper sequence: GLYMA07G15700.1 (Glycine max), 3'ss of exon 2
lower sequence: Vv05s0020g01520.t01 (Vitis vinifera), 3'ss of exon 2
gttggaattttatatgtgatacttgcctttctagat------tttattgtgttctttctgaaacccttgaact-----taattgttttgcattccttatgtggcagCTGAGAACGATCCACATGATGGCAAGAGAAACTGTGAGACATTATGGCCTATATTTAAGATTGCACACCAGAAGAGCCGCTACATATTTGACCTCTATCA
|||    | || | | | || | | |   |||  ||      ||| | |  |  || |||||    |  ||||     | |     ||  ||  ||| ||   ||||||| || || ||||||||||| |||||||| |||||| || ||||||| || || || || ||||| ||||||||||| || || ||||| || || ||
gttattctctt-tttctcatgcatacagctctgaatgttgtctttgtcgcttgtttgctgaacttataaaactaacaatgacaccgttctatgtcttttg-aacagCTGAAAATGACCCACATGATGGTAAGAGAAAATGTGAGGCACTATGGCCGATTTTCAAAATAGCACATCAGAAGAGCCGTTATATTTTTGATCTTTACCA

upper sequence: GLYMA07G15700.1 (Glycine max), 3'ss of exon 2
lower sequence: PP1S22_313V6.2 (Physcomitrella patens), 3'ss of exon 1
---gttggaattttatatgtgatacttgcctttc-tagattt-tattgtgttctttctgaaacccttgaacttaattgttttgcattccttatgtggcagCTGAGAACGATCCACATGATGGCAAGAGAAACTGTGAGACATTATGGCCTATATTTAAGATTGCACACCAGAAGAGCCGCTACATATTTGACCTCTATCA
    ||  |   | |  |  |    |||  ||||  || ||  | || | |      ||| |    |    |      |      ||   |  |  |||||||| || ||  | ||||| |||||||| || |||||| | || ||||| ||||| |||||  |||||||||||||||| ||||| | ||| || | | |
atgcttctatcgtaacttaagcaggttggttttcacaggttgatgttttatcacggttgagatttctagtgtctgacatgaatttttttatgggatgcagCTGAAAATGAGACTCATGAGGGCAAGAGGAAATGTGAGGCTTTGTGGCCAATATTCAAGATCTCACACCAGAAGAGCCGTTACATTTATGATCTATTTTA

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|38193912|gb|CF923118.1|CF923118
EST:     GGAATTAATTGAGCCTACTCTCCATGAACTTCAAGCAAAGATGAGGGAAG                         CTGAGAACGATCCACATGATGGCAAGAGAAACTGTGAGACATTATGGCCTA
genomic: GGAATTAATTGAGCCTACTCTCCATGAACTTCAAGCAAAGATGAGGGAAGgttggaattt ... tatgtggcagCTGAGAACGATCCACATGATGGCAAGAGAAACTGTGAGACATTATGGCCTA
EST: gi|208248646|gb|GE044101.1|GE044101
EST:     TGAACTTCAAGCAAAGATGAGGGAAG                         CTGAGAACGATCCACATGATGGCAAGAGAAACTGTGAGACATTATGGCCTA
genomic: TGAACTTCAAGCAAAGATGAGGGAAGgttggaattt ... tatgtggcagCTGAGAACGATCCACATGATGGCAAGAGAAACTGTGAGACATTATGGCCTA
EST: gi|151408524|gb|EV278332.1|EV278332
EST:     GGAATTAATTGAGCCTACTCTCCATGAACTTCAAGCAAAGATGAGGGAAG                         CTGAGAACGATCCACATGATGGCAAGAGAAACTGTGAGACATTATGGCCTA
genomic: GGAATTAATTGAGCCTACTCTCCATGAACTTCAAGCAAAGATGAGGGAAGgttggaattt ... tatgtggcagCTGAGAACGATCCACATGATGGCAAGAGAAACTGTGAGACATTATGGCCTA
EST: gi|38192606|gb|CF921812.1|CF921812
EST:     GGAATTAATTGAGCCTACTCTCCATGAACTTCAAGCAAAGATGAGGGAAG                         CTGAGAACGATCCACATGATGGCAAGAGAAACTGTGAGACATTATGGCCTA
genomic: GGAATTAATTGAGCCTACTCTCCATGAACTTCAAGCAAAGATGAGGGAAGgttggaattt ... tatgtggcagCTGAGAACGATCCACATGATGGCAAGAGAAACTGTGAGACATTATGGCCTA


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

ttgtgttctttctgaaacccttgaacttaattgttttgcattccttatgtggcagCTGAGAACGATCCACATGATGGCAAGAGAAACTGTGAGACATTATGGCCTATATTTAAGATTGCACACCAGAAGAGCCGCTACATATTTGACCTCTATCA
                        acttaat  putative branch site (score: 4)
                                      cattcctt  putative PPT
                       aacttaattgtttt  TA-rich tract