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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtttgttggtgatcttttcaattgttcaatttatgttggttcttgattttcacattgggattgggattaatgtgtttaattttgtgactgtttttagCCACAAGATGCATATGGGCTAGAGAAGCTTGCAACAGAGGAATTATGCAAGCACTATAACAAGGATTTTGGAATTGAGTGCCGCATTGGGAGGTTCCACA

Basic information

species Glycine max
transcript GLYMA20G36740.1
intron # 3
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GLYMA20G36740.2 (Glycine max), 3'ss of exon 3
lower sequence: LOC_Os10g28200.1 (Oryza sativa), 3'ss of exon 3
gtttgttggtgatcttttcaattgttcaatttatgttggttcttgatttt----cacattgggattgggattaatgtgtttaattttgtgactgtt-tttagCCACAAGATGCATATGGGCTAGAGAAGCTTGCAACAGAGGAATTATGCAAGCACTATAACAAGGATTTTGGAATTGAGTGCCGCATTGGGAGGTTCCACA
                ||      |  || | || || |   ||  | ||       | |   |   | | |    |   || | || | |||  | |  |||| |||||||| |||||  | |||||||||||||| |||||  | ||||||||||| | |||||| ||||| |||||||||||  ||||  | |||||||
---------------gtttgtccatcaaaataattttaggctttagtgttatgttttagtaaaaccagaagttgatttcctactgttttaactactgtccagCCTCAAGATGCCTATGGTTTGGAGAAGCTTGCAACTGAGGAGCTCTGCAAGCACTACACCAAGGACTTTGGCATTGAGTGCCGTGTTGGCCGCTTCCACA

upper sequence: GLYMA20G36740.2 (Glycine max), 3'ss of exon 3
lower sequence: GRMZM2G124434_T01 (Zea mays), 3'ss of exon 3
gtttgttggtgatcttttcaattgttcaatttatgttggttcttgattttcacattgggattgggattaatgtgtttaattttgtgactgtttttagCCACAAGATGCATATGGGCTAGAGAAGCTTGCAACAGAGGAATTATGCAAGCACTATAACAAGGATTTTGGAATTGAGTGCCGCATTGGGAGGTTCCACA
        |||   |  || |   | ||||  | |||  |  ||| |   || ||    | |   ||  |  |       |  |||     ||| |||| |||||||| |||||  | |||||||||||||| |||||  | ||||||||||| | |||||| ||||| || ||||||||| | ||  | |||||||
--------gtgtgttcatcgaa-atacaatg-acgttcctgtttgttagacatatatacagtcaaatctaaatcccc---tcggtgttacgtttcagCCTCAAGATGCCTATGGCTTGGAGAAGCTTGCAACCGAGGAGCTGTGCAAGCACTACACCAAGGACTTTGGCATCGAGTGCCGCGTCGGCCGCTTCCACA

upper sequence: GLYMA20G36740.2 (Glycine max), 3'ss of exon 3
lower sequence: AT5G28840.1 (Arabidopsis thaliana), 3'ss of exon 3
gtttgttggtgatcttttcaattgttcaatttatgttggttcttgattttcacattgggattgggattaatgtgtttaattttgtgactgtttttagCCACAAGATGCATATGGGCTAGAGAAGCTTGCAACAGAGGAATTATGCAAGCACTATAACAAGGATTTTGGAATTGAGTGCCGCATTGGGAGGTTCCACA
              |||   ||| ||   | ||||||  | ||  |  || |   || |  |    ||  | |||    |||||   ||| | | |||| |||||||| |||||  | ||||||||||| || ||||| || || ||||| || ||||| |||||||| |||||||| || ||||| |||||||| |
-------------gtttgtgattattttttatatgttcttgctaaagattta---tgagtctt---ttcttatgtgatgttttgatgctgatat-agCCTCAAGATGCTTATGGTTTGGAGAAGCTTGCTACGGAGGAGTTGTGTAAGCATTACAACAAAGATTTTGGTATTGAGTGTCGAATTGGAAGGTTCCATA

upper sequence: GLYMA20G36740.2 (Glycine max), 3'ss of exon 3
lower sequence: EDP09235 (Chlamydomonas reinhardtii), 3'ss of exon 5
----gtttgttggtgatcttttcaattgttcaatttatgttggttcttgattttcacattgggattgggattaatgtgtttaattttgtgactgtttttagCCACAAGATGCATATGGGCTAGAGAAGCTTGCAACAGAGGAATTATGCAAGCACTATAACAAGGATTTTGGAATTGAGTGCCGCATTGGGAGGTTCCACA
      | |   |||    |     | |     |   || ||   |  ||        |      ||    | |    |   |    ||    |     |||| |||||||| || || || |||||||| || || |||||  | ||||||||||| |||||||| || || |||||||||||||| | | | |||||||
gtcctctcggccgtgtgtctgcgtgtcgccggctgcttgctgcaccgcgacgccgctgtcactgctgattcttacacctcccaaac-gtcttcgcccgcagCCCCAAGATGCGTACGGCCTGGAGAAGCTGGCCACCGAGGAGCTGTGCAAGCACTACAACAAGGACTTCGGCATTGAGTGCCGCATCGCGCGCTTCCACA

upper sequence: GLYMA20G36740.2 (Glycine max), 3'ss of exon 3
lower sequence: EFJ10353 (Selaginella moellendorffii), 3'ss of exon 2
gtttgttggtgatcttttcaattgttcaatttatgttggttcttgattttcacattgggattgggattaatgtgtttaattttgtgactgtttttagCCACAAGATGCATATGGGCTAGAGAAGCTTGCAACAGAGGAATTATGCAAGCACTATAACAAGGATTTTGGAATTGAGTGCCGCATTGGGAGGTTCCACA
                       ||   |   |        |   |      | ||    ||| |   ||| ||   || ||||      |||  |||| |||||||| ||||| || ||||||||    || || ||  | ||||||||||| | |||||||||||| || ||||||||||||||  | |||||||
-----------------------gtatgaaaaagaaaaaaacaaaaaagcttcttttcttttgcggggaatctgaaaaaatttgcac---tttgcagCCCCAAGATGCCTATGGACTGGAGAAGCTATGCACTGAAGAGCTGTGCAAGCACTACACCAAGGATTTTGGGATCGAGTGCCGCATTGGACGATTCCACA

upper sequence: GLYMA20G36740.2 (Glycine max), 3'ss of exon 3
lower sequence: EFJ37016 (Selaginella moellendorffii), 3'ss of exon 2
gtttgttggtgatcttttcaattgttcaatttatgttggttcttgattttcacattgggattgggattaatgtgtttaattttgtgactgtttttagCCACAAGATGCATATGGGCTAGAGAAGCTTGCAACAGAGGAATTATGCAAGCACTATAACAAGGATTTTGGAATTGAGTGCCGCATTGGGAGGTTCCACA
                             | | ||   |      ||  |  | ||  |||  |||   |  | |  || | |     |  ||  |||| |||||||| |||||||| ||||||||    || || ||  | ||||||||||| | ||||||||||||||| |||||||| |||||| | |||||||
----------------------------gtatgtgaaagaaagaaatcctttctttctgatctgga---agttctaaaactcttgttttccttgcagCCCCAAGATGCCTATGGGCTGGAGAAGCTGTGCACGGAAGAGCTGTGCAAGCACTACACCAAGGATTTTGGAATCGAGTGCCGGATTGGGCGCTTCCACA

upper sequence: GLYMA20G36740.2 (Glycine max), 3'ss of exon 3
lower sequence: EFJ34003 (Selaginella moellendorffii), 3'ss of exon 2
gtttgttggtgatcttttcaattgttcaatttatgttggttcttgattttcacattgggattgggattaatgtgtttaattttgtgactgtttt-tagCCACAAGATGCATATGGGCTAGAGAAGCTTGCAACAGAGGAATTATGCAAGCACTATAACAAGGATTTTGGAATTGAGTGCCGCATTGGGAGGTTCCACA
                               |||||         |   |  | ||  |||     | || ||  | ||  |  ||  |   ||  |||| |||||||| |||||||| ||||||||    || || ||  | ||||||||||| | |||||| |||||||| |||||||| |||||| | |||||||
------------------------------gtatgtgaaagaagaaccctttctttctgatc----tgaaagttctaaaactcttgttttccttgcagCCCCAAGATGCCTATGGGCTGGAGAAGCTGTGCACCGAAGAGCTGTGCAAGCACTACACCAAGGACTTTGGAATCGAGTGCCGGATTGGGCGCTTCCACA

upper sequence: GLYMA20G36740.2 (Glycine max), 3'ss of exon 3
lower sequence: EFJ33664 (Selaginella moellendorffii), 3'ss of exon 2
gtttgttggtgatcttttcaattgttcaatttatgttggttcttgattttcacattgggattgggattaatgtgtttaattttgtgactgtttttagCCACAAGATGCATATGGGCTAGAGAAGCTTGCAACAGAGGAATTATGCAAGCACTATAACAAGGATTTTGGAATTGAGTGCCGCATTGGGAGGTTCCACA
                             | | ||   |      ||  |  | ||  |||  |||   |  | |  || | |     |  ||  |||| |||||||| |||||||| ||||||||    || || ||  | ||||||||||| | ||||||||||||||| |||||||| |||||| | |||||||
----------------------------gtatgtgaaagaaagaaatcctttctttctgatctgga---agttctaaaactcttgttttccttgcagCCCCAAGATGCCTATGGGCTGGAGAAGCTGTGCACCGAAGAGCTGTGCAAGCACTACACCAAGGATTTTGGAATCGAGTGCCGGATTGGGCGCTTCCACA

upper sequence: GLYMA20G36740.2 (Glycine max), 3'ss of exon 3
lower sequence: EFJ37510 (Selaginella moellendorffii), 3'ss of exon 2
gtttgttggtgatcttttcaattgttcaatttatgttggttcttgattttcacattgggattgggattaatgtgtttaattttgtgactgtttttagCCACAAGATGCATATGGGCTAGAGAAGCTTGCAACAGAGGAATTATGCAAGCACTATAACAAGGATTTTGGAATTGAGTGCCGCATTGGGAGGTTCCACA
                               |||||         |   |  | ||  |||  |||   |  |||  || | |     |  ||  |||| |||||||| |||||||| ||||||||    || || ||  | ||||||||||| | ||||||||||||||| |||||||| |||||| | |||||||
------------------------------gtatgtgaacgaagaaccctttctttctgatctgga---agttgtaaaactcttgttttccttgcagCCCCAAGATGCCTATGGGCTGGAGAAGCTGTGCACCGAAGAGCTGTGCAAGCACTACACCAAGGATTTTGGAATCGAGTGCCGGATTGGGCGCTTCCACA

upper sequence: GLYMA20G36740.2 (Glycine max), 3'ss of exon 3
lower sequence: EFJ18599 (Selaginella moellendorffii), 3'ss of exon 2
gtttgttggtgatcttttcaattgttcaatttatgttggttcttgattttcacattgggattgggattaatgtgtttaattttgtgactgtttttagCCACAAGATGCATATGGGCTAGAGAAGCTTGCAACAGAGGAATTATGCAAGCACTATAACAAGGATTTTGGAATTGAGTGCCGCATTGGGAGGTTCCACA
        ||         ||      ||   |    |||||||   |||      |    |   |  ||    ||  | ||||           |||| |||||||| ||||| || ||||||||    || || ||  | ||||||||||| | |||||||||||| || ||||||||||||||  | |||||||
--------gtatgaaaaagaaaaaaaaaaaaaaaaaaggttcttttcttttgtggggaatctaaaaacaa---attgcactttgc----------agCCCCAAGATGCCTATGGACTGGAGAAGCTGTGCACTGAAGAGCTGTGCAAGCACTACACCAAGGATTTTGGGATCGAGTGCCGCATTGGACGATTCCACA

upper sequence: GLYMA20G36740.2 (Glycine max), 3'ss of exon 3
lower sequence: EFJ36458 (Selaginella moellendorffii), 3'ss of exon 2
gtttgttggtgatcttttcaattgttcaatttatgttggttcttgattttcacattgggattgggattaatgtgtttaattttgtgactgtttttagCCACAAGATGCATATGGGCTAGAGAAGCTTGCAACAGAGGAATTATGCAAGCACTATAACAAGGATTTTGGAATTGAGTGCCGCATTGGGAGGTTCCACA
              | |  ||  |   ||   | |    |||||   |||  |   |    ||  |  ||    ||  | ||||           |||| |||||||| ||||| || ||||||||    || || ||  | ||||||||||| | |||||||||||| || ||||||||||||||  | |||||||
-------------gtatgaaaacgaaaaaaaaaagc---ttcttttcttttgcggggaatctgaaaaaaa---attgcactttgc----------agCCCCAAGATGCCTATGGACTGGAGAAGCTGTGCACTGAAGAGCTGTGCAAGCACTACACCAAGGATTTTGGGATCGAGTGCCGCATTGGACGATTCCACA

upper sequence: GLYMA20G36740.2 (Glycine max), 3'ss of exon 3
lower sequence: EFJ12864 (Selaginella moellendorffii), 3'ss of exon 2
gtttgttggtgatcttttcaattgttcaatttatgttggttcttgattttcacattgggattgggattaatgtgtttaatttt----gtgactgtttttagCCACAAGATGCATATGGGCTAGAGAAGCTTGCAACAGAGGAATTATGCAAGCACTATAACAAGGATTTTGGAATTGAGTGCCGCATTGGGAGGTTCCACA
                               |||| ||  |    |     | |      |||    | |    |||  ||||    ||  || ||| ||||| |||||||| ||||| |||||||||||    |  || ||  | ||||||||||| | ||||||||||||||| |||||||| ||||| || || ||||
------------------------------gtatgctgtcttccaagaaaaaaac--aacttgtttctcaaactttttgtttttcatgttgctctttctagCCTCAAGATGCTTATGGACTAGAGAAGCTCTGCAGTGAAGAGCTGTGCAAGCACTACACCAAGGATTTTGGAATCGAGTGCCGGATTGGAAGATTTCACA

upper sequence: GLYMA20G36740.2 (Glycine max), 3'ss of exon 3
lower sequence: EFJ19598 (Selaginella moellendorffii), 3'ss of exon 2
gtttgttggtgatcttttcaattgttcaatttatgttggttcttgattttcacattgggattgggattaatgtgtttaattttgtgactgtttttagCCACAAGATGCATATGGGCTAGAGAAGCTTGCAACAGAGGAATTATGCAAGCACTATAACAAGGATTTTGGAATTGAGTGCCGCATTGGGAGGTTCCACA
               | | ||      ||   |        |||    ||| | || |   ||||   ||| ||   || ||||      |||  |||| |||||||| ||||| || ||||||||    || || ||  | ||||||||||| | |||||||||||| || ||||||||||||||  | |||||||
--------------gtatgaaaaagaaaaaaaaaaaaaaaactt---cttctcttttg---tgggg--aatctgaaaaaatttgcac---tttgcagCCCCAAGATGCCTATGGACTGGAGAAGCTGTGCACTGAAGAGCTGTGCAAGCACTACACCAAGGATTTTGGGATCGAGTGCCGCATTGGACGATTCCACA

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|15287908|gb|BI471799.1|BI471799
EST:     AGTTGGAAACTAATGTTAGCTTGAAGGAGTCTGATGCATGGCCAGCTGAG                         CCACAAGATGCATATGGGCTAGAGAAG
genomic: AGTTGGAAACTAATGTTAGCTTGAAGGAGTCTGATGCATGGCCAGCTGAGgtttgttggt ... ctgtttttagCCACAAGATGCATATGGGCTAGAGAAG
EST: gi|192302093|gb|FG995227.1|FG995227
EST:     AGTTGGAAACTAATGTTAGCTTGAAGGAGTCTGATGCATGGCCAGCTGAG                         CCACAAGATGCATATGGGCTAGAGAAGCTTGCAACAGAGGAATTATGCAAG
genomic: AGTTGGAAACTAATGTTAGCTTGAAGGAGTCTGATGCATGGCCAGCTGAGgtttgttggt ... ctgtttttagCCACAAGATGCATATGGGCTAGAGAAGCTTGCAACAGAGGAATTATGCAAG
EST: gi|254317427|gb|GR826372.1|GR826372
EST:     AGTTGGAAACTAATGTTAGCTTGAAGGAGTCTGATGCATGGCCAGCTGAG                         CCACAAGATGCATATGGGCTAGAGAAGCTTGCAACAGAGGAATTATGCAAG
genomic: AGTTGGAAACTAATGTTAGCTTGAAGGAGTCTGATGCATGGCCAGCTGAGgtttgttggt ... ctgtttttagCCACAAGATGCATATGGGCTAGAGAAGCTTGCAACAGAGGAATTATGCAAG
EST: gi|208297285|gb|GE089294.1|GE089294
EST:     TTGAAGGAGTCTGATGCATGGCCAGCTGAG                         CCACAAGATGCATATGGGCTAGAGAAGCTTGCAACAGAGGAATTATGCAAG
genomic: TTGAAGGAGTCTGATGCATGGCCAGCTGAGgtttgttggt ... ctgtttttagCCACAAGATGCATATGGGCTAGAGAAGCTTGCAACAGAGGAATTATGCAAG


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

ttgattttcacattgggattgggattaatgtgtttaattttgtgactgtttttagCCACAAGATGCATATGGGCTAGAGAAGCTTGCAACAGAGGAATTATGCAAGCACTATAACAAGGATTTTGGAATTGAGTGCCGCATTGGGAGGTTCCACA
                                             ctgttttt  CT-rich tract
                       attaatgtgtttaatt  TA-rich tract