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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtattagttgcaaatttaaactgttttgctctactctgtattttcctttcattcattaagtgacaggatattgtttttttgttgcagTGGTTTGGTGAAGGAGAAAAATATGTCAAAGCAGTCTTTTCTCTGGCCAGCAAAATTGCTCCAAGTGTTATTTTTGTTGATGAG

Basic information

species Glycine max
transcript GLYMA02G17400.1
intron # 18
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GLYMA02G17400.1 (Glycine max), 3'ss of exon 18
lower sequence: LOC_Os03g22420.2 (Oryza sativa), 3'ss of exon 22
gtattagttgcaaatttaaactgttt-tgctctactctgtattttcctttcattcattaagtgacaggatattgtttttttgttgcagTGGTTTGGTGAAGGAGAAAAATATGTCAAAGCAGTCTTTTCTCTGGCCAGCAAAATTGCTCCAAGTGTTATTTTTGTTGATGAG----------------
|||||  |   ||||     || ||  | |     | ||| ||| | |||    |||    ||| |  ||  |||    ||    |||||||||||||||||||| || | ||| ||||| || ||||| ||||| |||||||||||||||||||||||||| || ||||||                
gtattt-tactaaatgattgctattagtccatggttttgtttttgcattttgggcatc---tga-aacattgtgtaccattaccacagTGGTTTGGTGAAGGAGAGAAGTTTGTGAAAGCTGTATTTTCACTGGCAAGCAAAATTGCTCCAAGTGTTATTTTCGTGGATGAGGTAAGTAAATTGTAAT

upper sequence: GLYMA02G17400.1 (Glycine max), 3'ss of exon 18
lower sequence: LOC_Os03g22420.1 (Oryza sativa), 3'ss of exon 22
gtattagttgcaaatttaaactgttt-tgctctactctgtattttcctttcattcattaagtgacaggatattgtttttttgttgcagTGGTTTGGTGAAGGAGAAAAATATGTCAAAGCAGTCTTTTCTCTGGCCAGCAAAATTGCTCCAAGTGTTATTTTTGTTGATGAG
|||||  |   ||||     || ||  | |     | ||| ||| | |||    |||    ||| |  ||  |||    ||    |||||||||||||||||||| || | ||| ||||| || ||||| ||||| |||||||||||||||||||||||||| || ||||||
gtattt-tactaaatgattgctattagtccatggttttgtttttgcattttgggcatc---tga-aacattgtgtaccattaccacagTGGTTTGGTGAAGGAGAGAAGTTTGTGAAAGCTGTATTTTCACTGGCAAGCAAAATTGCTCCAAGTGTTATTTTCGTGGATGAG

upper sequence: GLYMA02G17400.1 (Glycine max), 3'ss of exon 18
lower sequence: LOC_Os07g47530.2 (Oryza sativa), 3'ss of exon 22
gtattagttgcaaatttaaactgttttgctctactctgtattttcctttcattcattaagtgacaggatattgtttttttgttgcagTGGTTTGGTGAAGGAGAAAAATATGTCAAAGCAGTCTTTTCTCTGGCCAGCAAAATTGCTCCAAGTGTTATTTTTGTTGATGAG
      ||      |||| |  | | |||     ||   ||| | |     || | ||        | |  | | |  || |  ||||||||||| || || || |||||||||||||| || ||||| || || |||||||||||||| ||||| |||||||| ||||||
------gtactccctttatagagctatgcagagttccagattgttcacatcttgaatactccttttgctgatatctgattctgacagTGGTTTGGCGAGGGTGAGAAATATGTCAAAGCTGTGTTTTCACTTGCAAGCAAAATTGCTCCTAGTGTCATTTTTGTGGATGAG

upper sequence: GLYMA02G17400.1 (Glycine max), 3'ss of exon 18
lower sequence: GRMZM2G042074_T01 (Zea mays), 3'ss of exon 22
gtattagttgcaaatttaaactgttttgctctactctgtattttcctttcattcatta-agtgacaggatattgtttttttgttgcagTGGTTTGGTGAAGGAGAAAAATATGTCAAAGCAGTCTTTTCTCTGGCCAGCAAAATTGCTCCAAGTGTTATTTTTGTTGATGAG
    || ||   ||||  |   |  |   | |  |  | | ||   | || | ||||| ||   |   |||   | ||||     |||||| ||||||||||||||||||  || ||||| || ||||| ||||| || ||||||||||||||||| |||||||| || |||
---gtacttatcaattggacaagcctctgttt-tttggcagttgagtatc-tgcattatagcatctaaataacctattttc----cagTGGCTTGGTGAAGGAGAAAAATTCGTGAAAGCTGTTTTTTCACTGGCAAGTAAAATTGCTCCAAGTGTAATTTTTGTGGACGAG

upper sequence: GLYMA02G17400.1 (Glycine max), 3'ss of exon 18
lower sequence: GRMZM2G157621_T03 (Zea mays), 3'ss of exon 22
gtattagttgcaaatttaaactgttttgctctactctgtattttcctt--tcattcattaagtgacaggatattgtttttttgttgcagTGGTTTGGTGAAGGAGAAAAATATGTCAAAGCAGTCTTTTCTCTGGCCAGCAAAATTGCTCCAAGTGTTATTTTTGTTGATGAG
||| | || ||||  ||| |||  |    | |  ||   ||||    |  | |||  ||   |||    | |   | |   | |  ||||||||||| || |||||||||||||| ||||| || ||||| || || ||||||||| |||| ||||||||||| || ||||||
gtacttgt-gcaacgttatactcatcaagtttgttcccgatttggagtacttattactttgctgatttca-accctgtaactataacagTGGTTTGGAGAGGGAGAAAAATATGTGAAAGCTGTTTTTTCACTTGCAAGCAAAATTTCTCCTAGTGTTATTTTCGTGGATGAG

upper sequence: GLYMA02G17400.1 (Glycine max), 3'ss of exon 18
lower sequence: AT4G02480.1 (Arabidopsis thaliana), 3'ss of exon 21
gtattagttgcaaatttaaactgttttgctctactctgtattttcctttcattcattaag--tgacaggatattgtttttttgttgcagTGGTTTGGTGAAGGAGAAAAATATGTCAAAGCAGTCTTTTCTCTGGCCAGCAAAATTGCTCCAAGTGTTATTTTTGTTGATGAG
      ||  |     |||| || | || | | || |     || |||| | | |||     ||||    ||   |   |   ||||||||||||||||| ||||| || || || ||||| ||||| ||  | || ||||| ||||| |||||||| |||||||||||||||
------gtaactctcataaagtgatatgatttccttttatgctttcttttaatgattgtacttgaccatttacactaaatgctttgcagTGGTTTGGTGAGGGAGAGAAGTACGTTAAAGCTGTCTTCTCCTTAGCGAGCAAGATTGCGCCAAGTGTCATTTTTGTTGATGAG

upper sequence: GLYMA02G17400.1 (Glycine max), 3'ss of exon 18
lower sequence: Vv07s0005g00200.t01 (Vitis vinifera), 3'ss of exon 21
----gtattagttgcaaattta-aactgttttgctctactctgtattttcctttcattcattaagtgacaggatattgtttttttgttgcagTGGTTTGGTGAAGGAGAAAAATATGTCAAAGCAGTCTTTTCTCTGGCCAGCAAAATTGCTCCAAGTGTTATTTTTGTTGATGAG
     |||  |   |||| |    ||| |   |||||  | || |  |    ||     | ||  |||||   |  | ||  ||    |||||||||||| |||||||| |||||||||||||| || || ||||| || || |||||||| || |||||| |||||||||| |||
gtaaatatgtgcatcaaaatggtgactatgcagctctcttttgcaagtcttgttttgaaaatatttgacatcctgatattgctt----gcagTGGTTTGGGGAAGGAGAGAAATATGTCAAAGCTGTGTTCTCTCTAGCTAGTAAAATTGCACCTAGTGTTGTTTTTGTTGACGAG

upper sequence: GLYMA02G17400.1 (Glycine max), 3'ss of exon 18
lower sequence: EFJ31084 (Selaginella moellendorffii), 3'ss of exon 9
gtattagttgcaaatttaaactgttttgctctactctgtattttcctttcattcattaa-gtgacaggatattgtttttttgtt--gcagTGGTTTGGTGAAGGAGAAAAATATGTCAAAGCAGTCTTTTCTCTGGCCAGCAAAATTGCTCCAAGTGTTATTTTTGTTGATGAG
                                     |||    | |  ||     ||  ||   ||  ||  ||||| ||  |  ||||||||||||||| |  || ||||||||||| ||||| ||| || |||||||||||||  | ||||| ||  | || ||||| |||
-------------------------------------gtaagcacttaccacgtgatagtgttcaagtttaccgttttctttcttcgcagTGGTTTGGTGAGGCGGAGAAATATGTCAAGGCAGTATTTACTTTGGCCAGCAAAATCTCACCAAGCGTGGTGTTCGTTGACGAG

upper sequence: GLYMA02G17400.1 (Glycine max), 3'ss of exon 18
lower sequence: EFJ34631 (Selaginella moellendorffii), 3'ss of exon 11
gtattagttgcaaatttaaactgttttgctctactctgtattttcctttcattcattaa-gtgacaggatattgtttttttgtt--gcagTGGTTTGGTGAAGGAGAAAAATATGTCAAAGCAGTCTTTTCTCTGGCCAGCAAAATTGCTCCAAGTGTTATTTTTGTTGATGAG
                                     |||    | |  ||     ||  ||   ||  ||  ||||| ||  |  ||||||||||||||| |  || ||||||||||| ||||| ||| || |||||||||||||  | ||||| ||  | ||  |||| |||
-------------------------------------gtaagcacttaccacgtgatagtgttcaagtttaccgttttctttcttcgcagTGGTTTGGTGAGGCGGAGAAATATGTCAAGGCAGTATTTACTTTGGCCAGCAAAATCTCGCCAAGCGTGGTGTTCATTGACGAG

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|120494480|gb|EH222647.1|EH222647
EST:     AAGCTGGAGCAAATTTTATTAACATTTCAATGTCCAGCATTACATCCAAG                         TGGTTTGGTGAAGGAGAAAAATATGTCAAAGCAGTCTTTTCTCTGGCCAGC
genomic: AAGCTGGAGCAAATTTTATTAACATTTCAATGTCCAGCATTACATCCAAGgtattagttg ... tttgttgcagTGGTTTGGTGAAGGAGAAAAATATGTCAAAGCAGTCTTTTCTCTGGCCAGC
EST: gi|6667763|gb|AW279214.1|AW279214
EST:     AAGCTGGAGCAAATTTTATTAACATTTCAATGTCCAGCATTACATCCAAG                         TGGTTTGGTGAAGGAGAAAAATATGTCAAAGCAGTCTTTTCTCTGGCCAGC
genomic: AAGCTGGAGCAAATTTTATTAACATTTCAATGTCCAGCATTACATCCAAGgtattagttg ... tttgttgcagTGGTTTGGTGAAGGAGAAAAATATGTCAAAGCAGTCTTTTCTCTGGCCAGC
EST: gi|16284522|gb|BI946134.1|BI946134
EST:     AAGCTGGAGCAAATGTTATTAACATTTCAATGTCCAGCATTACATCCAAG                         TGGTTTGGTGAATGAGAGAAATATGTCAAAGCAGTCTTTTCTCTGGCCAGC
genomic: AAGCTGGAGCAAATTTTATTAACATTTCAATGTCCAGCATTACATCCAAGgtattagttg ... tttgttgcagTGGTTTGGTGAAGGAGAAAAATATGTCAAAGCAGTCTTTTCTCTGGCCAGC
EST: gi|120497089|gb|EH225256.1|EH225256
EST:     AAGCTGGAGCAAATTTTATTAACATTTCAATGTCCAGCATTACATCCAAG                         TGGTTTGGTGAAGGAGAAAAATATGTCAAAGCAGTCTTTTCTCTGGCCAGC
genomic: AAGCTGGAGCAAATTTTATTAACATTTCAATGTCCAGCATTACATCCAAGgtattagttg ... tttgttgcagTGGTTTGGTGAAGGAGAAAAATATGTCAAAGCAGTCTTTTCTCTGGCCAGC


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

actctgtattttcctttcattcattaagtgacaggatattgtttttttgttgcagTGGTTTGGTGAAGGAGAAAAATATGTCAAAGCAGTCTTTTCTCTGGCCAGCAAAATTGCTCCAAGTGTTATTTTTGTTGATGAG
                                      ttgttttttt  CT-rich tract
                                   atattgtttttttgtt  TA-rich tract