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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtaatatggtagctacaaactaagatgtagatttcacttttacaagatgctatcagagcatttttagaattgaagttttatgcactgagatctttctttctcaatctgctgttagGATTCCCTATTCTTGGGGTTGAGTGGCAAAAAATGGAAAATCCTGATCTGCGAATGGCAACGGGCATGAAACCTGACCAGAAAGGTGTGCGTATTAGAAG

Basic information

species Glycine max
transcript GLYMA17G09970.1
intron # 3
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GLYMA17G09970.1 (Glycine max), 3'ss of exon 3
lower sequence: LOC_Os06g12780.1 (Oryza sativa), 3'ss of exon 3
gtaatatggtagctacaaactaagatgtagatttcacttttacaagatgctatcagagcatttttagaatt--gaagttttatgc-actgagatctttctttctcaatctgctgttagGATTCCCTATTCTTGGGGTTGAGTGGCAAAAAATGGAAAATCCTGATCTGCGAATGGCAACGGGCATGAAACCTGACCAGAAAGGTGTGCGTATTAGAAG
                ||| |    ||| |   ||  |||| ||  ||  || |    ||| | |   |||  ||  ||  |||| | |    | ||  || ||  ||    |   ||| || ||||| |||||  | || ||||| |||||||||||||||||||| |||| ||||| ||| |||||| ||||||| || ||||| ||| | |||||
----------------aaaatgttttgtggtaatcctttttccattat--taacttcacatctatgatattctgattttccatgctatttgcttgttatttcctttattcttttgcagGTTTTCCTATACTTGGAATAGAATGGCAGAAAATGGAAAATCCTGATCTCCGAAAGGCAATGGGAATGAAATCTGACCAAAAGGGTGTTCGTGTCAGAAG

upper sequence: GLYMA17G09970.1 (Glycine max), 3'ss of exon 3
lower sequence: GRMZM2G165969_T01 (Zea mays), 3'ss of exon 4
gtaatatggtagctacaaactaagatgtagatttcacttttacaagatgctatcagagcatttttagaattgaagttttatgca-ctgagatctttctttctcaatctgctgt-tagGATTCCCTATTCTTGGGGTTGAGTGGCAAAAAATGGAAAATCCTGATCTGCGAATGGCAACGGGCATGAAACCTGACCAGAAAGGTGTGCGTATTAGAAG
                  | |||  || | |||  ||| | | ||  || | |   |   |  ||| |  |   || || || | |||  || |   | |||   |    | |  ||| |||||||| |||||  | || |||||||||||||||||||||||||| || | ||||| ||| |||||| || |||| || ||||| || ||  ||||
--------------ttttattaatttg-aaattgtactat-ataatctgatgt-gcactctagttacacctatggtcttctgaatctggtatgtaattatcttgtttcattttgcagGTTTCCCTATACTTGGAATAGAATGGCAAAAAATGGAAAATCCTGATCTCCGCAAGGCAATGGGAATGAAAGCTAACCAAAAGGGTGTTCGGATACGAAG

upper sequence: GLYMA17G09970.1 (Glycine max), 3'ss of exon 3
lower sequence: AT5G40200.1 (Arabidopsis thaliana), 3'ss of exon 3
gtaatatggtagctacaaactaagatgtagatttcacttttacaagatgctatcagagcatttttagaattgaagttttatgcactgagatctttctttctcaatctgctgttagGATTCCCTATTCTTGGGGTTGAGTGGCAAAAAATGGAAAATCCTGATCTGCGAATGGCAACGGGCATGAAACCTGACCAGAAAGGTGTGCGTATTAGAAG
                          |||  ||||||        ||||  || |  |   |||   |  |     |  |||  ||    | | || | ||  | ||| | ||||| || ||| |||| ||  ||||||||||||| ||||||||||||||| |||| | | ||| ||| ||| || || | || || || ||||| ||||||||
--------------------------gtaagtttcacc-------gatg--attaatgttgtttgttatctatctctacatgtgctt--ttttctcatacttgaactgtt-ttagGGTTTCCTGTTCTCGGAATTGAGTGGCAAAAGATGGAAAATCCTGATTTGCGGAAGTCAATGGGTATGGAATCTCATCAAAAGGGAGTGCGGATTAGAAG

upper sequence: GLYMA17G09970.1 (Glycine max), 3'ss of exon 3
lower sequence: Vv17s0000g07900.t01 (Vitis vinifera), 3'ss of exon 3
gtaatatggtagctacaaactaagatgtagatttcacttttacaagatgctatcagagcatttttagaattgaagttttatgcactgagatctttctttctcaatctgctgttagGATTCCCTATTCTTGGGGTTGAGTGGCAAAAAATGGAAAATCCTGATCTGCGAATGGCAACGGGCATGAAACCTGACCAGAAAGGTGTGCGTATTAGAAG
          |  |     ||    |   ||| | |   | | |   |  | |        || ||         | ||    |    ||| ||  |||    |  || |   ||||||||| || ||  |  |||||||||| || ||||||||||||||| |||||||||||| ||| ||||||||||| ||||| || || ||| |||||||
----------aatttttcccttgctttatgatgtaatgctcaaaccttttttttcccctgcttctaattccatgatatttgttatcatgattttgtttt----aaatgtt-ccagGATTCCCAATCCTATGCCTTGAGTGGCAGAAGATGGAAAATCCTGATTTGCGAATGGCAATGGGAATGAAACCTGATCAGAAGGGCGTTCGTGTTAGAAG

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|17519347|gb|BM188389.1|BM188389
EST:     AGTTATCATGCATTTTATCCAGGATTATGAGAAGAATGGAGGATATACTG                         GATTCCCTATTCTTGGGGTTGAGTGGCAAAAAATGGAAAATCCTGATCTGC
genomic: AGTTATCATGCATTTTATCCAGGATTATGAGAAGAATGGAGGATATACTGgtaatatggt ... ctgctgttagGATTCCCTATTCTTGGGGTTGAGTGGCAAAAAATGGAAAATCCTGATCTGC






















 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

tttttagaattgaagttttatgcactgagatctttctttctcaatctgctgttagGATTCCCTATTCTTGGGGTTGAGTGGCAAAAAATGGAAAATCCTGATCTGCGAATGGCAACGGGCATGAAACCTGACCAGAAAGGTGTGCGTATTAGAAG
                              tctttctttctcaatc  CT-rich tract
       aattgaagttttat  TA-rich tract