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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtatcaatattgtaaattactttttttgttgtgtatttccttgtatgcttcagttacaagaaaaacatggttttgtttgttgcagTGGTTTGGTGAAGGAGAGAAATATGTCAAAGCAGTCTTTTCTCTGGCCAGCAAAATTGCTCCAAGTGTTATTTTTGTTGACGAG

Basic information

species Glycine max
transcript GLYMA02G17410.1
intron # 17
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GLYMA02G17410.1 (Glycine max), 3'ss of exon 17
lower sequence: LOC_Os03g22420.2 (Oryza sativa), 3'ss of exon 22
gtatcaatattgtaaattactttttttgttgtgtatttccttgtatgcttcagttacaagaaaaacatggttttgt-ttgttgcagTGGTTTGGTGAAGGAGAGAAATATGTCAAAGCAGTCTTTTCTCTGGCCAGCAAAATTGCTCCAAGTGTTATTTTTGTTGACGAG----------------
     | | |  ||||| | |  | ||  |   |  ||   | | ||| |      ||    |||||| || |    ||    ||||||||||||||||||||||| | ||| ||||| || ||||| ||||| |||||||||||||||||||||||||| || || |||                
---gtattttactaaatgattgctattagtccatggttttgtttttgcattttgggcatctgaaacattgtgtaccattaccacagTGGTTTGGTGAAGGAGAGAAGTTTGTGAAAGCTGTATTTTCACTGGCAAGCAAAATTGCTCCAAGTGTTATTTTCGTGGATGAGGTAAGTAAATTGTAAT

upper sequence: GLYMA02G17410.1 (Glycine max), 3'ss of exon 17
lower sequence: LOC_Os03g22420.1 (Oryza sativa), 3'ss of exon 22
gtatcaatattgtaaattactttttttgttgtgtatttccttgtatgcttcagttacaagaaaaacatggt-tttgtttgttgcagTGGTTTGGTGAAGGAGAGAAATATGTCAAAGCAGTCTTTTCTCTGGCCAGCAAAATTGCTCCAAGTGTTATTTTTGTTGACGAG
     | | |  ||||| | |  | ||  |   |  ||   | | ||| |      ||    |||||| || |    ||    ||||||||||||||||||||||| | ||| ||||| || ||||| ||||| |||||||||||||||||||||||||| || || |||
---gtattttactaaatgattgctattagtccatggttttgtttttgcattttgggcatctgaaacattgtgtaccattaccacagTGGTTTGGTGAAGGAGAGAAGTTTGTGAAAGCTGTATTTTCACTGGCAAGCAAAATTGCTCCAAGTGTTATTTTCGTGGATGAG

upper sequence: GLYMA02G17410.1 (Glycine max), 3'ss of exon 17
lower sequence: LOC_Os07g47530.2 (Oryza sativa), 3'ss of exon 22
gtatcaatattgtaaattact------ttttttgttgtgtatttccttgtatgcttcagttacaagaaaaacatggttttgtttgttgcagTGGTTTGGTGAAGGAGAGAAATATGTCAAAGCAGTCTTTTCTCTGGCCAGCAAAATTGCTCCAAGTGTTATTTTTGTTGACGAG
|||      || || |    |      ||     ||||  |  || ||| || || |  || |    |         | || || |  ||||||||||| || || ||||||||||||||||| || ||||| || || |||||||||||||| ||||| |||||||| || |||
gtactccctttatagagctatgcagagttccagattgttcacatc-ttgaatactccttttgctgata---------tctgattctgacagTGGTTTGGCGAGGGTGAGAAATATGTCAAAGCTGTGTTTTCACTTGCAAGCAAAATTGCTCCTAGTGTCATTTTTGTGGATGAG

upper sequence: GLYMA02G17410.1 (Glycine max), 3'ss of exon 17
lower sequence: LOC_Os11g43970.1 (Oryza sativa), 3'ss of exon 22
--gtatcaatattgtaaattactttttttgttgtgtatttccttgtatgcttcagttacaagaaaaacatggttttgtttgttgcagTGGTTTGGTGAAGGAGAGAAATATGTCAAAGCAGTCTTTTCTCTGGCCAGCAAAATTGCTCCAAGTGTTATTTTTGTTGACGAG
   |      ||   || ||    ||  ||  |||||     |  ||||      | | |   |||   || ||||  |  || ||||||||||| ||||||||||||||||| ||||| || || ||  | || || ||||| |||||||| ||||| ||  |||| |||
gtatgatggcatccaaattttgcattaatgaggtgtacagtgtactatgtgattctcaaagctaaatgctgttttttctactttcagTGGTTTGGCGAAGGAGAGAAATATGTAAAAGCTGTTTTCTCATTAGCAAGTAAAATAGCTCCAAGCGTTATATTCATTGATGAG

upper sequence: GLYMA02G17410.1 (Glycine max), 3'ss of exon 17
lower sequence: GRMZM2G042074_T01 (Zea mays), 3'ss of exon 22
gtatcaat--attgtaaattactttttttgttgtgtatttccttgtatgcttcagttacaagaaaaacatggttttgtttgttgcagTGGTTTGGTGAAGGAGAGAAATATGTCAAAGCAGTCTTTTCTCTGGCCAGCAAAATTGCTCCAAGTGTTATTTTTGTTGACGAG
|||   ||  |||| | |   || | ||| ||| | | ||   | | |||     ||| |  |   | ||    |  |||    |||||| ||||||||||||| ||||  || ||||| || ||||| ||||| || ||||||||||||||||| |||||||| ||||||
gtacttatcaattggacaagcctctgttttttg-gcagttgagtatctgc----attatagcatctaaataacctattttc---cagTGGCTTGGTGAAGGAGAAAAATTCGTGAAAGCTGTTTTTTCACTGGCAAGTAAAATTGCTCCAAGTGTAATTTTTGTGGACGAG

upper sequence: GLYMA02G17410.1 (Glycine max), 3'ss of exon 17
lower sequence: GRMZM2G157621_T03 (Zea mays), 3'ss of exon 22
gtatcaatattgtaaattactttttttgttgtgtatttccttgtatgcttcagttacaagaaaaacatggttttgt--ttgttgcagTGGTTTGGTGAAGGAGAGAAATATGTCAAAGCAGTCTTTTCTCTGGCCAGCAAAATTGCTCCAAGTGTTATTTTTGTTGACGAG
|||    |         ||||  |   |||   |      ||| |    | | |     |   |         |||   | |  ||||||||||| || ||||| |||||||| ||||| || ||||| || || ||||||||| |||| ||||||||||| || || |||
gtacttgtgcaacgttatactcatcaagtttgttcccgatttggagtacttattactttgctgatttcaaccctgtaactataacagTGGTTTGGAGAGGGAGAAAAATATGTGAAAGCTGTTTTTTCACTTGCAAGCAAAATTTCTCCTAGTGTTATTTTCGTGGATGAG

upper sequence: GLYMA02G17410.1 (Glycine max), 3'ss of exon 17
lower sequence: AT4G02480.1 (Arabidopsis thaliana), 3'ss of exon 21
gtatcaatattgtaaattacttt--ttttgttgtgtatttccttgtatgcttcagttacaagaaaaacatggttttgtttgttgcagTGGTTTGGTGAAGGAGAGAAATATGTCAAAGCAGTCTTTTCTCTGGCCAGCAAAATTGCTCCAAGTGTTATTTTTGTTGACGAG
   | | | |  |||| |  | |  |||  || | |  || ||| ||    |    |||  ||  |       |   |   ||||||||||||||||| |||||||| || || ||||| ||||| ||  | || ||||| ||||| |||||||| ||||||||||| |||
--gtaactctcataaagtgatatgatttccttttatgctttcttttaatgattg--tacttgaccatttacactaaatgctttgcagTGGTTTGGTGAGGGAGAGAAGTACGTTAAAGCTGTCTTCTCCTTAGCGAGCAAGATTGCGCCAAGTGTCATTTTTGTTGATGAG

upper sequence: GLYMA02G17410.1 (Glycine max), 3'ss of exon 17
lower sequence: Vv07s0005g00200.t01 (Vitis vinifera), 3'ss of exon 21
gtatcaatattgtaaattactttttttgttgtgtatttcc---ttgtatgcttcagttacaagaaa---aacatggttttgtttgttgcagTGGTTTGGTGAAGGAGAGAAATATGTCAAAGCAGTCTTTTCTCTGGCCAGCAAAATTGCTCCAAGTGTTATTTTTGTTGACGAG
   | ||||| ||  || |   |  |   | || |  ||    ||| | |  |   ||  || | |    ||||  |  | ||  |||||||||||||| ||||||||||||||||||||||| || || ||||| || || |||||||| || |||||| ||||||||||||||
--gtaaatat-gtgcatcaaaatggtgactatgcagctctcttttgcaagtcttgttttgaaaatatttgacatcctgatattgcttgcagTGGTTTGGGGAAGGAGAGAAATATGTCAAAGCTGTGTTCTCTCTAGCTAGTAAAATTGCACCTAGTGTTGTTTTTGTTGACGAG

upper sequence: GLYMA02G17410.1 (Glycine max), 3'ss of exon 17
lower sequence: EFJ31084 (Selaginella moellendorffii), 3'ss of exon 9
gtatcaatattgtaaattactttttttgttgtgtatttccttgtatgcttcagttacaagaaaaacatggttttgtttgttgcagTGGTTTGGTGAAGGAGAGAAATATGTCAAAGCAGTCTTTTCTCTGGCCAGCAAAATTGCTCCAAGTGTTATTTTTGTTGACGAG
                             |  | | || |     || |   ||| ||||   | | |  |||  ||  | ||||||||||||||| |  |||||||||||||| ||||| ||| || |||||||||||||  | ||||| ||  | || |||||||||
----------------------------gtaagcacttacc-acgtgatagtgtt-caagtttaccgt--tttctttcttcgcagTGGTTTGGTGAGGCGGAGAAATATGTCAAGGCAGTATTTACTTTGGCCAGCAAAATCTCACCAAGCGTGGTGTTCGTTGACGAG

upper sequence: GLYMA02G17410.1 (Glycine max), 3'ss of exon 17
lower sequence: EFJ34631 (Selaginella moellendorffii), 3'ss of exon 11
gtatcaatattgtaaattactttttttgttgtgtatttccttgtatgcttcagttacaagaaaaacatggttttgtttgttgcagTGGTTTGGTGAAGGAGAGAAATATGTCAAAGCAGTCTTTTCTCTGGCCAGCAAAATTGCTCCAAGTGTTATTTTTGTTGACGAG
                             |  | | || |     || |   ||| ||||   | | |  |||  ||  | ||||||||||||||| |  |||||||||||||| ||||| ||| || |||||||||||||  | ||||| ||  | ||  ||||||||
----------------------------gtaagcacttacc-acgtgatagtgtt-caagtttaccgt--tttctttcttcgcagTGGTTTGGTGAGGCGGAGAAATATGTCAAGGCAGTATTTACTTTGGCCAGCAAAATCTCGCCAAGCGTGGTGTTCATTGACGAG


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

gtgtatttccttgtatgcttcagttacaagaaaaacatggttttgtttgttgcagTGGTTTGGTGAAGGAGAGAAATATGTCAAAGCAGTCTTTTCTCTGGCCAGCAAAATTGCTCCAAGTGTTATTTTTGTTGACGAG
                                        ttttgttt  CT-rich tract
                           aagaaaaa  TA-rich tract