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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtaagattcgcattgatctatgctacatgttctcttgatgtttgtttaggtgcctctctctctctctctctctctctgaatgattatgactgtgcttatcattttcagGTAAAAATTGGATTAAATCCATGATCCTTACAGCATCACTGTTCCCTTTCATGTGCTTTGGAATTGGTTTTATTTTAAACACTATTGCTATATTCTATGG

Basic information

species Glycine max
transcript GLYMA12G29120.1
intron # 9
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GLYMA12G29120.1 (Glycine max), 3'ss of exon 9
lower sequence: LOC_Os12g07670.1 (Oryza sativa), 3'ss of exon 9
gtaagattcgcattgatctatgctacatgttc-tcttgatgtttgtt-taggtgcctctctctctctctctctctctctgaatgattatgactgtgcttatcattttcagGTAAAAATTGGATTAAATCCATGATCCTTACAGCATCACTGTTCCCTTTCATGTGCTTTGGAATTGGTTTTATTTTAAACACTATTGCTATATTCTATGG
      ||    ||||  | |     || | | | |||   | | || ||  | ||    ||    | | |   | | ||||   | ||  |  | | |  ||      |||||||| ||||| ||  | ||||||||||||||||| || || || ||| ||||||||| |||||| ||| || | || || |||||||| |||||  |
----ttttttttttgaagtttctagaatttgcatgttgtcatatattatattttcccacttcatgatgtatggttttttgaaccgtaatttccttacatggca------gGTAAAAACTGGATAAAGGCTATGATCCTTACAGCATCCCTATTTCCATTCTTGTGCTTTGCAATTGGCTTTGTTCTGAATACAATTGCTATCTTCTACCG

upper sequence: GLYMA12G29120.1 (Glycine max), 3'ss of exon 9
lower sequence: GRMZM2G165631_T01 (Zea mays), 3'ss of exon 8
gtaagattcgcattgatctatgctacatgttctcttgatgtttgtttaggtgcctctctctctctctctctctctctgaatgattatgactgtgcttatcattttcagGTAAAAATTGGATTAAATCCATGATCCTTACAGCATCACTGTTCCCTTTCATGTGCTTTGGAATTGGTTTTATTTTAAACACTATTGCTATATTCTATGG
         | || |   |||    |||||    ||||  | | |     |   ||| |      |||  |   | | |||  || ||   | |           |||| ||||| ||||| ||  | |||  | | ||||||||||| ||||| || |||||||||||||||||  |  |  | ||||||||||||||         
---------gtatgggcttatttatcatgtaaaattgaactgtatacctatagttctataaggtgctcagttgttttaaatccttttggagGAGGAG--------CAGGGAAAAACTGGATCAAGGCAATGGCCATGACAGCATCACTTTTCCCATTTATGTGCTTTGGAATTGGCCTGGTGCTTAACACTATTGCTAT---------

upper sequence: GLYMA12G29120.1 (Glycine max), 3'ss of exon 9
lower sequence: AT1G10950.1 (Arabidopsis thaliana), 3'ss of exon 9
gtaagattcgcattgatctatgctacatgttctcttgatgtttgtttaggtgcctctctctctctctctctctctctgaatgattatgactgtgcttatcattttcagGTAAAAATTGGATTAAATCCATGATCCTTACAGCATCACTGTTCCCTTTCATGTGCTTTGGAATTGGTTTTATTTTAAACACTATTGCTATATTCTATGG
                  ||||    |       | |  |     |   |||   || ||   ||||||  || |   | | |||   |   || ||    | |||||||||| ||||||| || | |||| |||| || || || || ||||| ||  ||||||| |||||||| ||| |  ||||||| ||||| |||||||||||
-----------------gtatgacttactcgacttggcggacccctccagtgttactttc---ctctctaactattcaagtaatttaaatgctggtt----tattcagGTAAACATTGGATCAAGTGCATGGTCCTCACGGCTTCTCTCTTCCCCTTTTTGTGCTTCGGAATTGGCTTTCTCCTAAACACAATTGCCATATTCTATGG

upper sequence: GLYMA12G29120.1 (Glycine max), 3'ss of exon 9
lower sequence: Vv12s0035g00280.t01 (Vitis vinifera), 3'ss of exon 9
--------------------------------------------------------------------gtaagattcgcattgatctatgct--acatgt-tctcttgatgtttgtttaggtgcctctctctctctctctctct--ctctgaatgattatgactgtgcttatcatttt--cagGTAAAAATTGGATTAAATCCATGATCCTTACAGCATCACTGTTCCCTTTCATGTGCTTTGGAATTGGTTTTATTTTAAACACTATTGCTATATTCTATGG
                                                                     |     |    |||   |||  |  ||| || | ||||||| | | | ||     || ||| | |   |   |||    || ||| || || ||| |   | |||| ||  |||||||||  |||||||| || ||||| || || |||||||| || || || ||||||||||| ||||| ||  | || || || |||||||||||||||||
gtatgtacttcatccgtcaactggtcgatggctaagtttcttgtttttctgggcttccttccatatcttttgtgctttttttgggttatatttaacaagtatttcttgatatgt-tctactcaactgtctttgtgattgcttctggtgctaaattat-atcact-tctctgtcatcttgtcagGTAAAACCTGGATTAAGTCGATGATTCTCACTGCATCACTTTTTCCATTTATGTGCTTTGGGATTGGGTTCTTGTTGAATACAATTGCTATATTCTATGG

upper sequence: GLYMA12G29120.1 (Glycine max), 3'ss of exon 9
lower sequence: Vv18s0041g00680.t01 (Vitis vinifera), 3'ss of exon 9
---------------------------------------------------------------------------gtaagattcgcattgatctatgctacatg--ttctcttgatgtttgtttaggtgcctctctctctctctctctctct-ctgaatgattatgactgtgcttatcattttcagGTAAAAATTGGATTAAATCCATGATCCTTACAGCATCACTGTTCCCTTTCATGTGCTTTGGAATTGGTTTTATTTTAAACACTATTGCTATATTCTATGG
                                                                           |   | ||   |||  | |||  |  |||  |    |  ||   || | |  | |       | ||    | | | | |||   | |||| ||||||  ||   || ||||||||||  ||||| || || ||||| || || |||||||| ||||| || ||||||||||| |||||||| || || ||||| |||||||||||||||||
gtaagtaatttgtacattatgttgcctcactcttagtcttctgtcaccccctaaatttcatgtacgaaaggcatggcctgtttttgattcttttattgtcaatgaatctcttctataaatggtcatttcctctgtcttatcagcatttgtttactggtggcttattactgtgtctac--ttgtcagGTAAAAGCTGGATAAAGTCAATGATACTCACTGCATCACTTTTCCCGTTTATGTGCTTTGGGATTGGTTTCATCTTGAACACAATTGCTATATTCTATGG

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|208126673|gb|GD921129.1|GD921129
EST:     GGGGGGATGTACTCACGTAATGGGG                         GTAAAAATTGGATTAAATCCATGATCCTTACAGCATCACTGTTCCCTTTCA
genomic: GGGGGGATGTACTCACGTAATGGGGgtaagattcg ... tcattttcagGTAAAAATTGGATTAAATCCATGATCCTTACAGCATCACTGTTCCCTTTCA
EST: gi|6341551|gb|AW164375.1|AW164375
EST:     GTGAGTGGGGGGATGTACTCACGTAATGGGG                         GTAAAAATTGGATTAAATCCATGATCCTTACAGCATCACTGTTCCCTTTCA
genomic: GTGAGTGGGGGGATGTACTCACGTAATGGGGgtaagattcg ... tcattttcagGTAAAAATTGGATTAAATCCATGATCCTTACAGCATCACTGTTCCCTTTCA


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

ctctctctctctctctctctctctgaatgattatgactgtgcttatcattttcagGTAAAAATTGGATTAAATCCATGATCCTTACAGCATCACTGTTCCCTTTCATGTGCTTTGGAATTGGTTTTATTTTAAACACTATTGCTATATTCTATGG
                                             tcattttc  CT-rich tract
                                          ttatcatttt  TA-rich tract