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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtattagttgcaaatttaaacagttttgctctactttgtatttcctttcattcataagtgacaggatagatattgtttttttgttgcagTGGTTTGGTGAAGGAGAAAAATATGTCAAAGCAGTCTTTTCTCTGGCCAGCAAAATTGCTCCAAGTGTTATTTTTGTTGATGAG

Basic information

species Glycine max
transcript GLYMA10G02410.1
intron # 18
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GLYMA10G02410.1 (Glycine max), 3'ss of exon 18
lower sequence: LOC_Os03g22420.2 (Oryza sativa), 3'ss of exon 22
gtattagttgcaaatttaaacagttttgctctactttgtatttcctttcattcataagtgacaggatagatattgtttttttgttgcagTGGTTTGGTGAAGGAGAAAAATATGTCAAAGCAGTCTTTTCTCTGGCCAGCAAAATTGCTCCAAGTGTTATTTTTGTTGATGAG----------------
|||||  || | || |  |    | ||  || |   ||  |||  |||      |  |  |   || | ||  |||    ||    |||||||||||||||||||| || | ||| ||||| || ||||| ||||| |||||||||||||||||||||||||| || ||||||                
gtatt--ttactaaat-gattgctattagtcca---tggttttgtttttgcattttgggcatctgaaacattgtgtaccattaccacagTGGTTTGGTGAAGGAGAGAAGTTTGTGAAAGCTGTATTTTCACTGGCAAGCAAAATTGCTCCAAGTGTTATTTTCGTGGATGAGGTAAGTAAATTGTAAT

upper sequence: GLYMA10G02410.1 (Glycine max), 3'ss of exon 18
lower sequence: LOC_Os03g22420.1 (Oryza sativa), 3'ss of exon 22
gtattagttgcaaatttaaacagttttgctctactttgtatttcctttcattcataagtgacaggatagatattgtttttttgttgcagTGGTTTGGTGAAGGAGAAAAATATGTCAAAGCAGTCTTTTCTCTGGCCAGCAAAATTGCTCCAAGTGTTATTTTTGTTGATGAG
|||||  || | || |  |    | ||  || |   ||  |||  |||      |  |  |   || | ||  |||    ||    |||||||||||||||||||| || | ||| ||||| || ||||| ||||| |||||||||||||||||||||||||| || ||||||
gtatt--ttactaaat-gattgctattagtcca---tggttttgtttttgcattttgggcatctgaaacattgtgtaccattaccacagTGGTTTGGTGAAGGAGAGAAGTTTGTGAAAGCTGTATTTTCACTGGCAAGCAAAATTGCTCCAAGTGTTATTTTCGTGGATGAG

upper sequence: GLYMA10G02410.1 (Glycine max), 3'ss of exon 18
lower sequence: LOC_Os07g47530.2 (Oryza sativa), 3'ss of exon 22
gtattagttgcaaatttaaacagttttgctctactttgtatttcctttcattcataagtgacaggatagatattgtttttttgttgcagTGGTTTGGTGAAGGAGAAAAATATGTCAAAGCAGTCTTTTCTCTGGCCAGCAAAATTGCTCCAAGTGTTATTTTTGTTGATGAG
      ||      |||| | || | |||     |    |||   ||    || | | |       | | |  | | |  || |  ||||||||||| || || || |||||||||||||| || ||||| || || |||||||||||||| ||||| |||||||| ||||||
------gtactccctttatagagctatgcagagttccagattg--ttcacatcttgaatactccttttgctgatatctgattctgacagTGGTTTGGCGAGGGTGAGAAATATGTCAAAGCTGTGTTTTCACTTGCAAGCAAAATTGCTCCTAGTGTCATTTTTGTGGATGAG

upper sequence: GLYMA10G02410.1 (Glycine max), 3'ss of exon 18
lower sequence: GRMZM2G042074_T01 (Zea mays), 3'ss of exon 22
gtattagttgcaaatttaaacagttttgctctactttgtatttcctttcattcataagtgacaggatagatattgtttttttgttgcagTGGTTTGGTGAAGGAGAAAAATATGTCAAAGCAGTCTTTTCTCTGGCCAGCAAAATTGCTCCAAGTGTTATTTTTGTTGATGAG
    || ||   ||||  |  ||  |   | |  || | | ||   |   | ||| |     || ||  | ||    | |||  | |||||| ||||||||||||||||||  || ||||| || ||||| ||||| || ||||||||||||||||| |||||||| || |||
---gtacttatcaattggacaagcctctgttt-tttggcagttgagtatctgcatta----tagcatctaaataacctattt--tccagTGGCTTGGTGAAGGAGAAAAATTCGTGAAAGCTGTTTTTTCACTGGCAAGTAAAATTGCTCCAAGTGTAATTTTTGTGGACGAG

upper sequence: GLYMA10G02410.1 (Glycine max), 3'ss of exon 18
lower sequence: GRMZM2G157621_T03 (Zea mays), 3'ss of exon 22
gtattagttgcaaatttaaacagttttgctctactttgtatttcctttcattcataagtgacaggatagatattgtttttttgttgcagTGGTTTGGTGAAGGAGAAAAATATGTCAAAGCAGTCTTTTCTCTGGCCAGCAAAATTGCTCCAAGTGTTATTTTTGTTGATGAG
||| | || ||||  ||| ||   |    | |  |    ||||    |  ||  ||  |  | |  |  | |   | |   | |  ||||||||||| || |||||||||||||| ||||| || ||||| || || ||||||||| |||| ||||||||||| || ||||||
gtacttgt-gcaacgttatactcatcaagtttgttcccgatttggagtacttattactttgctgatttca-accctgtaactataacagTGGTTTGGAGAGGGAGAAAAATATGTGAAAGCTGTTTTTTCACTTGCAAGCAAAATTTCTCCTAGTGTTATTTTCGTGGATGAG

upper sequence: GLYMA10G02410.1 (Glycine max), 3'ss of exon 18
lower sequence: AT4G02480.1 (Arabidopsis thaliana), 3'ss of exon 21
gtattagttgcaaatttaaacagttttgctctactttgtatttcctttcattcataagtgacaggatagatattgtttttttgttgcagTGGTTTGGTGAAGGAGAAAAATATGTCAAAGCAGTCTTTTCTCTGGCCAGCAAAATTGCTCCAAGTGTTATTTTTGTTGATGAG
|||    |   ||| | | |   |||        ||| |  || |||| | | ||  ||    |   |  ||   |   |   ||||||||||||||||| ||||| || || || ||||| ||||| ||  | || ||||| ||||| |||||||| |||||||||||||||
gtaactctcataaagtgatatgatttc-----cttttatgctttcttttaatgatt-gtacttgaccatttacactaaatgctttgcagTGGTTTGGTGAGGGAGAGAAGTACGTTAAAGCTGTCTTCTCCTTAGCGAGCAAGATTGCGCCAAGTGTCATTTTTGTTGATGAG

upper sequence: GLYMA10G02410.1 (Glycine max), 3'ss of exon 18
lower sequence: Vv07s0005g00200.t01 (Vitis vinifera), 3'ss of exon 21
----gtattagttgcaaattta-aacagttttgctctactttgta--tttcctttcattcataagtgacaggatagatattgtttttttgttgcagTGGTTTGGTGAAGGAGAAAAATATGTCAAAGCAGTCTTTTCTCTGGCCAGCAAAATTGCTCCAAGTGTTATTTTTGTTGATGAG
     |||  |   |||| |    ||  |   |||||  |||| |  | |  |||     |||  |||||   | ||||||| ||       |||||||||||| |||||||| |||||||||||||| || || ||||| || || |||||||| || |||||| |||||||||| |||
gtaaatatgtgcatcaaaatggtgactatgcagctctcttttgcaagtcttgttttgaaaatatttgacatcct-gatattgctt-------gcagTGGTTTGGGGAAGGAGAGAAATATGTCAAAGCTGTGTTCTCTCTAGCTAGTAAAATTGCACCTAGTGTTGTTTTTGTTGACGAG

upper sequence: GLYMA10G02410.1 (Glycine max), 3'ss of exon 18
lower sequence: EFJ31084 (Selaginella moellendorffii), 3'ss of exon 9
gtattagttgcaaatttaaacagttttgctctactttgtatttcctt-tcattcataagtgacaggatagatattgtttttttgttgcagTGGTTTGGTGAAGGAGAAAAATATGTCAAAGCAGTCTTTTCTCTGGCCAGCAAAATTGCTCCAAGTGTTATTTTTGTTGATGAG
                                     |||    |||  ||      ||||      |  |   | || |||  | ||||||||||||||| |  || ||||||||||| ||||| ||| || |||||||||||||  | ||||| ||  | || ||||| |||
-------------------------------------gtaagcacttaccacgtgatagtgttcaagtttaccgttttctttcttcgcagTGGTTTGGTGAGGCGGAGAAATATGTCAAGGCAGTATTTACTTTGGCCAGCAAAATCTCACCAAGCGTGGTGTTCGTTGACGAG

upper sequence: GLYMA10G02410.1 (Glycine max), 3'ss of exon 18
lower sequence: EFJ34631 (Selaginella moellendorffii), 3'ss of exon 11
gtattagttgcaaatttaaacagttttgctctactttgtatttcctt-tcattcataagtgacaggatagatattgtttttttgttgcagTGGTTTGGTGAAGGAGAAAAATATGTCAAAGCAGTCTTTTCTCTGGCCAGCAAAATTGCTCCAAGTGTTATTTTTGTTGATGAG
                                     |||    |||  ||      ||||      |  |   | || |||  | ||||||||||||||| |  || ||||||||||| ||||| ||| || |||||||||||||  | ||||| ||  | ||  |||| |||
-------------------------------------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|16279857|gb|BI943651.1|BI943651
EST:     AAGCTGGAGCAAATNNTATTAACATTTCAATGTCCAGCATTACGTCCAAG                         TGGGTTGGTGAAGGAGAAAAATATGTCAAAGCAGTCTTTTCTCTGGCCAGC
genomic: AAGCTGGAGCAAATTTTATTAACATTTCAATGTCCAGCATTACGTCCAAGgtattagttg ... tttgttgcagTGGTTTGGTGAAGGAGAAAAATATGTCAAAGCAGTCTTTTCTCTGGCCAGC






















 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

tttgtatttcctttcattcataagtgacaggatagatattgtttttttgttgcagTGGTTTGGTGAAGGAGAAAAATATGTCAAAGCAGTCTTTTCTCTGGCCAGCAAAATTGCTCCAAGTGTTATTTTTGTTGATGAG
                                      ttgttttttt  CT-rich tract
                               atagatattgtttttt  TA-rich tract