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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gttagttggtgatcttttgaattgttcaatttatgttggttcttgattttcacattgggattgggattaatttgtttaattttgtgactttttttagCCTCAAGATGCATATGGGCTAGAGAAACTTGCAACAGAGGAATTATGCAAGCACTATAACAAGGATTTTGGAATTGAGTGCCGCATTGGGAGGTTCCACA

Basic information

species Glycine max
transcript GLYMA10G30400.1
intron # 2
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GLYMA10G30400.1 (Glycine max), 3'ss of exon 2
lower sequence: LOC_Os10g28200.1 (Oryza sativa), 3'ss of exon 3
gttagttggtgatcttttgaattgttcaatttatgttggttcttgattttcacattgggattgggattaatttgtttaattttgtgactttt-tttagCCTCAAGATGCATATGGGCTAGAGAAACTTGCAACAGAGGAATTATGCAAGCACTATAACAAGGATTTTGGAATTGAGTGCCGCATTGGGAGGTTCCACA
       | |  ||  |  || |  |   |||| | |      | || ||    |       |   || ||||   || | || | |||  | |  ||||||||||||| |||||  | ||||| |||||||| |||||  | ||||||||||| | |||||| ||||| |||||||||||  ||||  | |||||||
-------gtttgtccatcaaaataat---tttaggctttagtgttatgttttagtaaaaccagaagttgattt-cctactgttttaactactgtccagCCTCAAGATGCCTATGGTTTGGAGAAGCTTGCAACTGAGGAGCTCTGCAAGCACTACACCAAGGACTTTGGCATTGAGTGCCGTGTTGGCCGCTTCCACA

upper sequence: GLYMA10G30400.1 (Glycine max), 3'ss of exon 2
lower sequence: GRMZM2G124434_T01 (Zea mays), 3'ss of exon 3
gttagttggtgatcttttgaattgttcaatttatgttg--gttcttgattttcacattgggattgggattaatttgtttaattttg-tgactttttttagCCTCAAGATGCATATGGGCTAGAGAAACTTGCAACAGAGGAATTATGCAAGCACTATAACAAGGATTTTGGAATTGAGTGCCGCATTGGGAGGTTCCACA
                 ||  ||  || |  ||   ||  |||| || || | | |     ||   |   ||| |   |    | | ||     ||| ||||||||||||| |||||  | ||||| |||||||| |||||  | ||||||||||| | |||||| ||||| || ||||||||| | ||  | |||||||
----------------gtgtgttcatcgaaatacaatgacgttcctgtttgttagacatatatacagtcaaatctaaatcccctcggtgttacgtttcagCCTCAAGATGCCTATGGCTTGGAGAAGCTTGCAACCGAGGAGCTGTGCAAGCACTACACCAAGGACTTTGGCATCGAGTGCCGCGTCGGCCGCTTCCACA

upper sequence: GLYMA10G30400.1 (Glycine max), 3'ss of exon 2
lower sequence: AT5G28840.1 (Arabidopsis thaliana), 3'ss of exon 3
gttagttggtgatcttttgaattgttcaatttatgttggttcttgattttcacattgggattgggattaatttgtttaattttgtgactttttt-tagCCTCAAGATGCATATGGGCTAGAGAAACTTGCAACAGAGGAATTATGCAAGCACTATAACAAGGATTTTGGAATTGAGTGCCGCATTGGGAGGTTCCACA
              |||   ||| ||   ||||| |  |||||||   |  | |||   ||  |  ||   || | | || || |||   |  | |||||||||||||| |||||  | ||||| ||||| || ||||| || || ||||| || ||||| |||||||| |||||||| || ||||| |||||||| |
-------------gtttgtgattattt--tttatat--gttcttg--ctaaagatt--tatgagtcttttcttatgtgatgttttgatgctgatatagCCTCAAGATGCTTATGGTTTGGAGAAGCTTGCTACGGAGGAGTTGTGTAAGCATTACAACAAAGATTTTGGTATTGAGTGTCGAATTGGAAGGTTCCATA

upper sequence: GLYMA10G30400.1 (Glycine max), 3'ss of exon 2
lower sequence: EDP09235 (Chlamydomonas reinhardtii), 3'ss of exon 5
----gttagttggtgatcttttgaattgttcaatttatgttggttcttgattttcacattgggattgggattaatttgtttaattttgtgactttttttagCCTCAAGATGCATATGGGCTAGAGAAACTTGCAACAGAGGAATTATGCAAGCACTATAACAAGGATTTTGGAATTGAGTGCCGCATTGGGAGGTTCCACA
      | |   |||    |  |  | |     |   || ||   |  ||        |      ||    | |    |   |    ||          |||| |||||||| || || || ||||| || || || |||||  | ||||||||||| |||||||| || || |||||||||||||| | | | |||||||
gtcctctcggccgtgtgtctgcgtgtcgccggctgcttgctgcaccgcgacgccgctgtcactgctgattcttacacctcccaaac-gtcttcgcccgcagCCCCAAGATGCGTACGGCCTGGAGAAGCTGGCCACCGAGGAGCTGTGCAAGCACTACAACAAGGACTTCGGCATTGAGTGCCGCATCGCGCGCTTCCACA

upper sequence: GLYMA10G30400.1 (Glycine max), 3'ss of exon 2
lower sequence: EFJ10353 (Selaginella moellendorffii), 3'ss of exon 2
gttagttggtgatcttttgaattgttcaatttatgttggttcttgattttcacattgggattgggattaatttgtttaattttgtgactttttttagCCTCAAGATGCATATGGGCTAGAGAAACTTGCAACAGAGGAATTATGCAAGCACTATAACAAGGATTTTGGAATTGAGTGCCGCATTGGGAGGTTCCACA
                       ||   |   |        |   |      | ||    ||| |   ||| ||   || ||||      |||  |||| |||||||| ||||| || ||||| ||    || || ||  | ||||||||||| | |||||||||||| || ||||||||||||||  | |||||||
-----------------------gtatgaaaaagaaaaaaacaaaaaagcttcttttcttttgcggggaatctgaaaaaatttgca---ctttgcagCCCCAAGATGCCTATGGACTGGAGAAGCTATGCACTGAAGAGCTGTGCAAGCACTACACCAAGGATTTTGGGATCGAGTGCCGCATTGGACGATTCCACA

upper sequence: GLYMA10G30400.1 (Glycine max), 3'ss of exon 2
lower sequence: EFJ37016 (Selaginella moellendorffii), 3'ss of exon 2
gttagttggtgatcttttgaattgttcaatttatgttggttcttgattttcacattgggattgggattaatttgtttaattttgtgactttttttagCCTCAAGATGCATATGGGCTAGAGAAACTTGCAACAGAGGAATTATGCAAGCACTATAACAAGGATTTTGGAATTGAGTGCCGCATTGGGAGGTTCCACA
                             | | ||   |      ||  |  | ||  |||  |||   | || |  || | |     |  ||  |||| |||||||| |||||||| ||||| ||    || || ||  | ||||||||||| | ||||||||||||||| |||||||| |||||| | |||||||
----------------------------gtatgtgaaagaaagaaatcctttctttctgatctgga---agttctaaaactcttgttttccttgcagCCCCAAGATGCCTATGGGCTGGAGAAGCTGTGCACGGAAGAGCTGTGCAAGCACTACACCAAGGATTTTGGAATCGAGTGCCGGATTGGGCGCTTCCACA

upper sequence: GLYMA10G30400.1 (Glycine max), 3'ss of exon 2
lower sequence: EFJ34003 (Selaginella moellendorffii), 3'ss of exon 2
gttagttggtgatcttttgaattgttcaatttatgttggttcttgattttcacattgggattgggattaatttgtttaattttgtgactttttttagCCTCAAGATGCATATGGGCTAGAGAAACTTGCAACAGAGGAATTATGCAAGCACTATAACAAGGATTTTGGAATTGAGTGCCGCATTGGGAGGTTCCACA
                               |||||         |   |  | ||  |||  | |   | || |  || | |     |  ||  |||| |||||||| |||||||| ||||| ||    || || ||  | ||||||||||| | |||||| |||||||| |||||||| |||||| | |||||||
------------------------------gtatgtgaaagaagaaccctttctttctgatctgaa---agttctaaaactcttgttttccttgcagCCCCAAGATGCCTATGGGCTGGAGAAGCTGTGCACCGAAGAGCTGTGCAAGCACTACACCAAGGACTTTGGAATCGAGTGCCGGATTGGGCGCTTCCACA

upper sequence: GLYMA10G30400.1 (Glycine max), 3'ss of exon 2
lower sequence: EFJ33664 (Selaginella moellendorffii), 3'ss of exon 2
gttagttggtgatcttttgaattgttcaatttatgttggttcttgattttcacattgggattgggattaatttgtttaattttgtgactttttttagCCTCAAGATGCATATGGGCTAGAGAAACTTGCAACAGAGGAATTATGCAAGCACTATAACAAGGATTTTGGAATTGAGTGCCGCATTGGGAGGTTCCACA
                             | | ||   |      ||  |  | ||  |||  |||   | || |  || | |     |  ||  |||| |||||||| |||||||| ||||| ||    || || ||  | ||||||||||| | ||||||||||||||| |||||||| |||||| | |||||||
----------------------------gtatgtgaaagaaagaaatcctttctttctgatctgga---agttctaaaactcttgttttccttgcagCCCCAAGATGCCTATGGGCTGGAGAAGCTGTGCACCGAAGAGCTGTGCAAGCACTACACCAAGGATTTTGGAATCGAGTGCCGGATTGGGCGCTTCCACA

upper sequence: GLYMA10G30400.1 (Glycine max), 3'ss of exon 2
lower sequence: EFJ37510 (Selaginella moellendorffii), 3'ss of exon 2
gttagttggtgatcttttgaattgttcaatttatgttggttcttgattttcacattgggattgggattaatttgtttaattttgtgactttttttagCCTCAAGATGCATATGGGCTAGAGAAACTTGCAACAGAGGAATTATGCAAGCACTATAACAAGGATTTTGGAATTGAGTGCCGCATTGGGAGGTTCCACA
                               |||||         |   |  | ||  |||  |||   | ||||  || | |     |  ||  |||| |||||||| |||||||| ||||| ||    || || ||  | ||||||||||| | ||||||||||||||| |||||||| |||||| | |||||||
------------------------------gtatgtgaacgaagaaccctttctttctgatctgga---agttgtaaaactcttgttttccttgcagCCCCAAGATGCCTATGGGCTGGAGAAGCTGTGCACCGAAGAGCTGTGCAAGCACTACACCAAGGATTTTGGAATCGAGTGCCGGATTGGGCGCTTCCACA

upper sequence: GLYMA10G30400.1 (Glycine max), 3'ss of exon 2
lower sequence: EFJ18599 (Selaginella moellendorffii), 3'ss of exon 2
gttagttggtgatcttttgaattgttcaatttatgttggttcttgattttcacattgggattgggattaatttgtttaattttgtgactttttttagCCTCAAGATGCATATGGGCTAGAGAAACTTGCAACAGAGGAATTATGCAAGCACTATAACAAGGATTTTGGAATTGAGTGCCGCATTGGGAGGTTCCACA
        ||        |||      ||   |    |||||||   |||      |    |   |  || |||             |  |||  |||| |||||||| ||||| || ||||| ||    || || ||  | ||||||||||| | |||||||||||| || ||||||||||||||  | |||||||
--------gtatgaaaaagaaaaaaaaaaaaaaaaaaggttcttttcttttgtggggaatctaaaaacaaattg-------------cactttgcagCCCCAAGATGCCTATGGACTGGAGAAGCTGTGCACTGAAGAGCTGTGCAAGCACTACACCAAGGATTTTGGGATCGAGTGCCGCATTGGACGATTCCACA

upper sequence: GLYMA10G30400.1 (Glycine max), 3'ss of exon 2
lower sequence: EFJ36458 (Selaginella moellendorffii), 3'ss of exon 2
gttagttggtgatcttttgaattgttcaatttatgttggttcttgattttcacattgggattgggattaatttgtttaattttgtgactttttttagCCTCAAGATGCATATGGGCTAGAGAAACTTGCAACAGAGGAATTATGCAAGCACTATAACAAGGATTTTGGAATTGAGTGCCGCATTGGGAGGTTCCACA
               | ||||      ||   |    | |||||   |||  |   |    ||  |  || |||             |  |||  |||| |||||||| ||||| || ||||| ||    || || ||  | ||||||||||| | |||||||||||| || ||||||||||||||  | |||||||
--------------gtatgaa--aacgaaaaaaaaaagcttcttttcttttgcggggaatctgaaaaaaaattg-------------cactttgcagCCCCAAGATGCCTATGGACTGGAGAAGCTGTGCACTGAAGAGCTGTGCAAGCACTACACCAAGGATTTTGGGATCGAGTGCCGCATTGGACGATTCCACA

upper sequence: GLYMA10G30400.1 (Glycine max), 3'ss of exon 2
lower sequence: EFJ12864 (Selaginella moellendorffii), 3'ss of exon 2
gttagttggtgatcttttgaattgttcaatttatgttggttctt--gattttcacattgggattgggattaatttgtttaattttgtgactttttttagCCTCAAGATGCATATGGGCTAGAGAAACTTGCAACAGAGGAATTATGCAAGCACTATAACAAGGATTTTGGAATTGAGTGCCGCATTGGGAGGTTCCACA
                               |||| ||  |     ||     |||    | ||   |    |||  ||  |  |||  || ||| |||||||||||||| ||||| |||||||| ||    |  || ||  | ||||||||||| | ||||||||||||||| |||||||| ||||| || || ||||
------------------------------gtatgctgtcttccaagaaaaaaacaacttgtttctcaaactttttgtttttcatgttgctctttctagCCTCAAGATGCTTATGGACTAGAGAAGCTCTGCAGTGAAGAGCTGTGCAAGCACTACACCAAGGATTTTGGAATCGAGTGCCGGATTGGAAGATTTCACA

upper sequence: GLYMA10G30400.1 (Glycine max), 3'ss of exon 2
lower sequence: EFJ19598 (Selaginella moellendorffii), 3'ss of exon 2
gttagttggtgatcttttgaattgttcaatttatgttggttcttgattttcacattgggattgggattaatttgtttaattttgtgactttttttagCCTCAAGATGCATATGGGCTAGAGAAACTTGCAACAGAGGAATTATGCAAGCACTATAACAAGGATTTTGGAATTGAGTGCCGCATTGGGAGGTTCCACA
               | ||||      ||   |        |||    ||| | || |   ||||   ||| ||   || ||||      |||  |||| |||||||| ||||| || ||||| ||    || || ||  | ||||||||||| | |||||||||||| || ||||||||||||||  | |||||||
--------------gtatgaaaaagaaaaaaaaaaaaaaaactt---cttctcttttg---tgggg--aatctgaaaaaatttgca---ctttgcagCCCCAAGATGCCTATGGACTGGAGAAGCTGTGCACTGAAGAGCTGTGCAAGCACTACACCAAGGATTTTGGGATCGAGTGCCGCATTGGACGATTCCACA

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|6566810|gb|AW234442.1|AW234442
EST:     AGTTGGAAACTAATGTGAGCTTGAAGGAGTCCGATGCATGGCCAGCTGAG                         CCTCAAGATGCATATGGGCTAGAGAAACTTGCAACAGAGGAATTATGCAAG
genomic: AGTTGGAAACTAATGTGAGCTTGAAGGAGTCCGATGCATGGCCAGCTGAGgttagttggt ... ctttttttagCCTCAAGATGCATATGGGCTAGAGAAACTTGCAACAGAGGAATTATGCAAG
EST: gi|15814341|gb|BI786616.1|BI786616
EST:     AGTTGGAAACTAATGTGAGCTTGAAGGAGTCCGATGCATGGCCAGCTGAG                         CCTCAAGATGCATATGGGCTAGAGAAACTTGCAACAGAG
genomic: AGTTGGAAACTAATGTGAGCTTGAAGGAGTCCGATGCATGGCCAGCTGAGgttagttggt ... ctttttttagCCTCAAGATGCATATGGGCTAGAGAAACTTGCAACAGAG
EST: gi|19347182|gb|BM892062.1|BM892062
EST:     AGTTGGAAACTAATGTGAGCTTGAAGGAATCCGATGCATGGCCAACTGAG                         CCTCAAGATGCATATGGGCTAGAGAAA
genomic: AGTTGGAAACTAATGTGAGCTTGAAGGAGTCCGATGCATGGCCAGCTGAGgttagttggt ... ctttttttagCCTCAAGATGCATATGGGCTAGAGAAA
EST: gi|19348759|gb|BM893291.1|BM893291
EST:     AGTTGGAAACTAATGTGAGCTTGAAGGAGTCCGATGCATGGCCAGCTGAG                         CCTCAAGATGCATATGGGCTAGAGAAA
genomic: AGTTGGAAACTAATGTGAGCTTGAAGGAGTCCGATGCATGGCCAGCTGAGgttagttggt ... ctttttttagCCTCAAGATGCATATGGGCTAGAGAAA
EST: gi|26058273|gb|CA801187.1|CA801187
EST:     AGTTGGAAACTAATGTGAGCTTGAAGGAGTCCGATGCATGGCCAGCTGAG                         CCTCAAGATGCATATGGGCTAGAGAAA
genomic: AGTTGGAAACTAATGTGAGCTTGAAGGAGTCCGATGCATGGCCAGCTGAGgttagttggt ... ctttttttagCCTCAAGATGCATATGGGCTAGAGAAA
EST: gi|151403142|gb|EV272952.1|EV272952
EST:     AGTTGGAAACTAATGTGAGCTTGAAGGAGTCCGATGCATGGCCAGCTGAG                         CCTCAAGATGCATATGGGCTAGAGAAACTTGCAACAGAGGAATTATGCAAG
genomic: AGTTGGAAACTAATGTGAGCTTGAAGGAGTCCGATGCATGGCCAGCTGAGgttagttggt ... ctttttttagCCTCAAGATGCATATGGGCTAGAGAAACTTGCAACAGAGGAATTATGCAAG
EST: gi|20813404|gb|BQ297882.1|BQ297882
EST:     AGTTGGAAACTAATGTGAGCTTGAAGGAGTCCGATGCATGGCCAGCTGAG                         CCTCAAGATGCATATGGGCTAGAGAAACTTGCAACAGAGGAATTATGCAAG
genomic: AGTTGGAAACTAATGTGAGCTTGAAGGAGTCCGATGCATGGCCAGCTGAGgttagttggt ... ctttttttagCCTCAAGATGCATATGGGCTAGAGAAACTTGCAACAGAGGAATTATGCAAG


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

ttgattttcacattgggattgggattaatttgtttaattttgtgactttttttagCCTCAAGATGCATATGGGCTAGAGAAACTTGCAACAGAGGAATTATGCAAGCACTATAACAAGGATTTTGGAATTGAGTGCCGCATTGGGAGGTTCCACA
                                             cttttttt  CT-rich tract
                       attaatttgtttaatt  TA-rich tract