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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtattgtatccttattatgacaaggtccttccttgacttttttagatagtgatattaaactagtatatcatttttcttgcagCAAATGTGTTTCATCGTGATTTGAAGCCAAAAAACATTCTTGCTAACGCTGATTGCAAACTAAAAATATGTGATTTTGGGCTTGCTCGAGTTTCATTTAA

Basic information

species Glycine max
transcript GLYMA05G33980.1
intron # 2
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GLYMA05G33980.1 (Glycine max), 3'ss of exon 2
lower sequence: AT1G18150.3 (Arabidopsis thaliana), 3'ss of exon 3
-----------gtattgtatccttattatgacaaggtccttccttgacttttttagatagtgatattaaactagtatatcatttttc--ttgcagCAAATGTGTTTCATCGTGATTTGAAGCCAAAAAACATTCTTGCTAACGCTGATTGCAAACTAAAAATATGTGATTTTGGGCTTGCTCGAGTTTCATTTAA
           || ||  | | ||  | |     | ||||  | ||| |||| |      | ||||| ||  | |  |   || |    || |||| |||||||||||||| |||||||| || || |||||||| ||||| |||||||||||| | || || |||||||||||||| ||||| ||||| |||||
gttagtttctggttttaca-cattggtctctttcgatcct--catgatttttgttatagataatattgaaacacttaagggttctctgttttcagCTAATGTGTTTCATCGGGATTTGAAACCGAAGAACATTCTAGCTAATGCTGATTGCAAATTGAAGATCTGTGATTTTGGGCTGGCTCGCGTTTCTTTTAA

upper sequence: GLYMA05G33980.1 (Glycine max), 3'ss of exon 2
lower sequence: AT3G18040.2 (Arabidopsis thaliana), 3'ss of exon 1
----gtattgtatccttattatgacaaggtccttccttgacttttttagatagtgatattaaactagtatatcatttttct------tgcagCAAATGTGTTTCATCGTGATTTGAAGCCAAAAAACATTCTTGCTAACGCTGATTGCAAACTAAAAATATGTGATTTTGGGCTTGCTCGAGTTTCATTTAA
    ||    |  | | |  |   |  | | | |  |   | ||  |   |    |  | || ||  |  |  | |||| |      | |||| |||||||||||||||||||||||||| ||||| ||||| || ||| ||||||||||  | || || || || ||||||||||||||||| || |||||
gcgagtgccttggcttgagaaattcgtgtttccttttgtccattactgcttttcaaactcaatctgatggaaaacttttttattcgatacagCTAATGTGTTTCATCGTGATTTGAAGCCTAAAAATATTCTAGCCAACTCTGATTGCAAGTTGAAGATTTGCGACTTTGGGCTTGCTCGAGTGTCCTTTAA

upper sequence: GLYMA05G33980.1 (Glycine max), 3'ss of exon 2
lower sequence: AT1G73670.1 (Arabidopsis thaliana), 3'ss of exon 2
gtattgtatccttattatgacaaggtccttccttgacttttttagatagtgatattaaactagtatatcatttttc--ttgcagCAAATGTGTTTCATCGTGATTTGAAGCCAAAAAACATTCTTGCTAACGCTGATTGCAAACTAAAAATATGTGATTTTGGGCTTGCTCGAGTTTCATTTAA
|| | || ||   |   |  |     | |   ||  | || | | |||  | |||| ||    ||  ||  | ||   ||||||| |||||||||||||| |||||||| ||||| |||||||||||||| |||||||||||  | || || ||||| ||||| || ||||| || || |||||
gt-tagtttctaaacagtctctttcacttgtgttatcattatgatataaggttattgaagagctacgtctctgtttgtttgcagCGAATGTGTTTCATCGGGATTTGAAACCAAAGAACATTCTTGCTAATGCTGATTGCAAGTTGAAGATTTGTGACTTTGGTCTAGCTCGTGTATCTTTTAA

upper sequence: GLYMA05G33980.1 (Glycine max), 3'ss of exon 2
lower sequence: Vv17s0000g02570.t01 (Vitis vinifera), 3'ss of exon 2
------gtattgtatccttattatgacaaggtccttccttgacttttttagat--agtgatattaaactagtatatcatt-tttcttgcagCAAATGTGTTTCATCGTGATTTGAAGCCAAAAAACATTCTTGCTAACGCTGATTGCAAACTAAAAATATGTGATTTTGGGCTTGCTCGAGTTTCATTTAA
      |  ||  |    ||||||  |     | ||  ||  ||||| |      | ||      ||  |  || | ||  |||||| ||||||||||||||||||| ||||||||||||||||| ||||||||||| || || |||||  | || || |||||||||||||||||||| || ||||| ||
gttggtgcttttcagagatattatagcctcaccgtttgtttgcttttatgtcctgaatggccactaataaaaattttatggtttcttccagCAAATGTGTTTCATCGAGATTTGAAGCCAAAAAATATTCTTGCTAATGCCGACTGCAAGTTGAAGATTTGTGATTTTGGGCTTGCTCGGGTGTCATTCAA

upper sequence: GLYMA05G33980.1 (Glycine max), 3'ss of exon 2
lower sequence: PP1S87_157V6.2 (Physcomitrella patens), 3'ss of exon 2
----------------------gtattgtatccttattatgacaaggtccttccttgacttttttagatagtgatattaaactagtatatcatttttcttgcagCAAATGTGTTTCATCGTGATTTGAAGCCAAAAAACATTCTTGCTAACGCTGATTGCAAACTAAAAATATGTGATTTTGGGCTTGCTCGAGTTTCATTTAA
                      | |   ||     |||||||     |   |   || ||  ||| |||  |||  |    ||  ||| |   |  |  |  ||| ||||| |||||||| ||| | |||||||| ||  |  | || |||||||||||||| || ||||| ||||||||||| |||||||| ||  | || | 
tgaaaatgtaactatatttcaagaagaatagtgg-attatgatctaatgaatgtgtgtctcgtttggatgttgacgt---gcttctatttgggtgatgctttagCTAATGTATTTCATCGCGATCTCAAGCCAAAGAATGTATTGGCAAACGCTGATTGCAAGCTGAAAATTTGTGATTTTGGACTTGCTCGGGTGGCTTTCAG

upper sequence: GLYMA05G33980.1 (Glycine max), 3'ss of exon 2
lower sequence: PP1S80_71V6.2 (Physcomitrella patens), 3'ss of exon 2
--------------gtattgtatccttattatgacaaggtccttccttgacttttttagatagt----gatattaaactagt-atatcatttttcttgcagCAAATGTGTTTCATCGTGATTTGAAGCCAAAAAACATTCTTGCTAACGCTGATTGCAAACTAAAAATATGTGATTTTGGGCTTGCTCGAGTTTCATTTAA
              |||    |  || ||   ||   |||||||  | || || | |   |  |    ||| || |  |  | || |      |  | |||| |||||||||||||| ||  |||||||||| ||| |  | || |||||||| || ||||| ||||| ||||| ||||| |||||||||||  | |||| 
tcacaactctcactgtacaaaagactgat-gggatgtggtcctttttggatttctgtctgtttttgtggatgttgacgtcttcatgtttgggattgttcagCTAATGTGTTTCATCGCGACCTGAAGCCAAAGAACGTGTTGGCAAACGCTGACTGTAAACTGAAAATTTGTGACTTTGGACTTGCTCGAGTGGCCTTTAG

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|192306378|gb|FG996138.1|FG996138
EST:     TCAGTTTTTCTTGTGCCAACTTCTTAGGGGCCTGAAATATATACATACAG                         CAAATGTGTTTCATCGTGATTTGAAGCCAAAAAACATTCTTGCTAACGCTG
genomic: TCAGTTTTTCTTGTACCAACTTCTTAGGGGCCTGAAATATATACATACAGgtattgtatc ... tttcttgcagCAAATGTGTTTCATCGTGATTTGAAGCCAAAAAACATTCTTGCTAACGCTG
EST: gi|5175437|gb|AI759770.1|AI759770
EST:     TCAGTTTTTCTTGTACCAACTTCTTAGGGGCCTGAAATATATACATACAG                         CAAATGTGTTTCATCGTGATTTGAAGCCAAAAAACATTCTTGCTAACGCTG
genomic: TCAGTTTTTCTTGTACCAACTTCTTAGGGGCCTGAAATATATACATACAGgtattgtatc ... tttcttgcagCAAATGTGTTTCATCGTGATTTGAAGCCAAAAAACATTCTTGCTAACGCTG


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

cttccttgacttttttagatagtgatattaaactagtatatcatttttcttgcagCAAATGTGTTTCATCGTGATTTGAAGCCAAAAAACATTCTTGCTAACGCTGATTGCAAACTAAAAATATGTGATTTTGGGCTTGCTCGAGTTTCATTTAA
   ccttgac  putative branch site (score: 4)
                                        tcatttttctt  putative PPT
                        atattaaactagtata  TA-rich tract