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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

TGGACCTCCTGGTACTGGAAAGACGATGCTGGCAAAAGCAGTAGCAACTGAGGCTGGCGCAAATTTCATCAATATCTCAATGTCCAGCATTACTTCGAAGgtaactctcataaagtgatatgatttccttttatgctttcttttaatgattgtacttgaccatttacactaaatgctttgcag

Basic information

species Arabidopsis thaliana
transcript AT4G02480.1
intron # 21
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: AT4G02480.1 (Arabidopsis thaliana), 5'ss of exon 21
lower sequence: LOC_Os11g43970.1 (Oryza sativa), 5'ss of exon 22
TGGACCTCCTGGTACTGGAAAGACGATGCTGGCAAAAGCAGTAGCAACTGAGGCTGGCGCAAATTTCATCAATATCTCAATGTCCAGCATTACTTCGAAGgtaactctcataaagtgatatgatttccttttatgctttcttttaatgattgtacttgaccatttacactaaatgctttgcag-----------
|||||||||||||||||| || || ||||| || || |||||||||||||| || || || || ||||| || || |||||||| |||||||| |||||||||    | ||    |   |   ||| | || |||   | |   | || |  ||  |||   |  |  ||||||||| |               
TGGACCTCCTGGTACTGGGAAAACCATGCTTGCTAAGGCAGTAGCAACTGAAGCAGGTGCTAACTTCATTAACATATCAATGTCAAGCATTACATCGAAGgta----tgatggcatc-caaattttgcattaatgaggtgtac-agtg-tactatgtgattctcaaagctaaatgctgttttttctactttcag

upper sequence: AT4G02480.1 (Arabidopsis thaliana), 5'ss of exon 21
lower sequence: LOC_Os07g47530.2 (Oryza sativa), 5'ss of exon 22
TGGACCTCCTGGTACTGGAAAGACGATGCTGGCAAAAGCAGTAGCAACTGAGGCTGGCGCAAATTTCATCAATATCTCAATGTCCAGCATTACTTCGAAGgtaactctcataaagtgatatgatttccttttatgctttcttttaatgattgtacttgaccatttacactaaatgctttgcag
||| || |||||||| || ||||| ||||| || ||||| || ||||| ||||||||||| ||||| ||||| || |||||||| || ||| |||| ||||||   |   || || | ||||      |        |||   |  ||| |   | |      | | |    || ||   |||
TGGCCCACCTGGTACGGGGAAGACCATGCTTGCTAAAGCTGTTGCAACAGAGGCTGGCGCCAATTTTATCAACATATCAATGTCTAGTATTGCTTCAAAGgtactccctttatagagctatgcagagttccagattgttcacatcttgaatactcctt-ttgctgatatctgattctg-acag

upper sequence: AT4G02480.1 (Arabidopsis thaliana), 5'ss of exon 21
lower sequence: GRMZM2G126453_T02 (Zea mays), 5'ss of exon 7
TGGACCTCCTGGTACTGGAAAGACGATGCTGGCAAAAGCAGTAGCAACTGAGGCTGGCGCAAATTTCATCAATATCTCAATGTCCAGCATTACTTCGAAGgtaac-tctcataaagtg---atatgatttccttttatgctttcttttaatgattgtacttgaccatttacactaaatgctttgcag
 ||||||||||| |||||||| || ||||| || ||||||||||||||||| || ||||| |||||||||||||| |||||||| |||||||| |||||||||   | |||   | ||   |  ||||    ||   | || |||       |    | | |    || ||  | |           
CGGACCTCCTGGCACTGGAAAAACTATGCTTGCCAAAGCAGTAGCAACTGAAGCAGGCGCTAATTTCATCAATATATCAATGTCGAGCATTACATCGAAGgtattatttcacctaatgggcaactgatgagattcactactgtctcaaggctaac-cagtggtttgttaactttcag----------

upper sequence: AT4G02480.1 (Arabidopsis thaliana), 5'ss of exon 21
lower sequence: GRMZM2G435582_T01 (Zea mays), 5'ss of exon 2
TGGACCTCCTGGTACTGGAAAGACGATGCTGGCAAAAGCAGTAGCAACTGAGGCTGGCGCAAATTTCATCAATATCTCAATGTCCAGCATTACTTCGAAGgtaac-tctcataaagtg---atatgatttccttttatgctttcttttaatgattgtacttgaccatttacactaaatgctttgcag
 ||||||||||| |||||||| || ||||| || ||||||||||||||||| || ||||| |||||||||||||| |||||||| |||||||| || ||||||   | |||   | ||   |  ||||    ||   | || |||       |    | | |    || ||  | |           
CGGACCTCCTGGCACTGGAAAAACTATGCTTGCCAAAGCAGTAGCAACTGAAGCAGGCGCTAATTTCATCAATATATCAATGTCGAGCATTACATCTAAGgtattatttcacctaatgggcaactgatgagattcactactgtctcaaggctaac-cagtggtttgttaactttcag----------

upper sequence: AT4G02480.1 (Arabidopsis thaliana), 5'ss of exon 21
lower sequence: GRMZM2G354532_T01 (Zea mays), 5'ss of exon 1
TGGACCTCCTGGTACTGGAAAGACGATGCTGGCAAAAGCAGTAGCAACTGAGGCTGGCGCAAATTTCATCAATATCTCAATGTCCAGCATTACTTCGAAGgtaac-tctcataaagtg---atatgatttccttttatgctttcttttaatgattgtacttgaccatttacactaaatgctttgcag
 ||||||||||| |||||||| || ||||| || ||||||||||||||||| || ||||| |||||||||||||| |||||||| |||||||| || ||||||   | |||   | ||   |  ||||    ||   | || |||                                          
CGGACCTCCTGGCACTGGAAAAACTATGCTTGCCAAAGCAGTAGCAACTGAAGCAGGCGCTAATTTCATCAATATATCAATGTCGAGCATTACATCTAAGgtattatttcacctaatgggcaactgatgagattcactactgtctcaag--------------------------------------

upper sequence: AT4G02480.1 (Arabidopsis thaliana), 5'ss of exon 21
lower sequence: GRMZM2G052403_T01 (Zea mays), 5'ss of exon 13
TGGACCTCCTGGTACTGGAAAGACGATGCTGGCAAAAGCAGTAGCAACTGAGGCTGGCGCAAATTTCATCAATATCTCAATGTCCAGCATTACTTCGAAGgtaac-tctcataaagtgatatgatttccttttatgctttcttttaatgattg--tacttgaccatttacactaaatgctttgcag
 ||||||||||| ||||| || || ||||| || ||||||||||||||||| || || || |||||||||||||| |||||||| |||||||| |||||||||   | | |   || |      |       |   |||   | | | |  |    | | |  | |||||  | |           
CGGACCTCCTGGCACTGGGAAAACTATGCTTGCCAAAGCAGTAGCAACTGAAGCAGGTGCTAATTTCATCAATATATCAATGTCGAGCATTACGTCGAAGgtattatttgacctagcgggcaactgatgagattcacttgtgtctcaagcctaaccagtggttcgtttactttcag----------

upper sequence: AT4G02480.1 (Arabidopsis thaliana), 5'ss of exon 21
lower sequence: GRMZM2G170037_T01 (Zea mays), 5'ss of exon 4
TGGACCTCCTGGTACTGGAAAGACGATGCTGGCAAAAGCAGTAGCAACTGAGGCTGGCGCAAATTTCATCAATATCTCAATGTCCAGCATTACTTCGAAGgtaac-tctcataaagtg---atatgatttccttttatgctttcttttaatgattgtacttgaccatttacactaaatgctttgcag
 ||| ||||||| |||||||| || ||||| || ||||||||||||||| | |  ||||| |||||||||||||| |||||||| |||||||| |  ||||||   | |||   | ||   |  ||||    ||   | || |||       |    | | |    || ||  | |           
CGGATCTCCTGGCACTGGAAAAACTATGCTTGCCAAAGCAGTAGCAACTAAAGTAGGCGCTAATTTCATCAATATATCAATGTCGAGCATTACATGTAAGgtattatttcacctaatgggcaactgatgagattcactactgtctcaaggctaac-cagtggtttgttaactttcag----------

upper sequence: AT4G02480.1 (Arabidopsis thaliana), 5'ss of exon 21
lower sequence: GRMZM2G042074_T01 (Zea mays), 5'ss of exon 22
TGGACCTCCTGGTACTGGAAAGACGATGCTGGCAAAAGCAGTAGCAACTGAGGCTGGCGCAAATTTCATCAATATCTCAATGTCCAGCATTACTTCGAAGgtaactctcataaagtgatatgatttccttttatgctttcttttaatgattgtacttgaccatttacactaaatgctttgcag
||| || ||||||||||||||||| ||||| || || || || |||||||||||||| || |||||||| || || || ||||| |||||  |||| ||||||   || || || ||  |  |    || || |       || | |   || | |  | ||| || |  |  |  ||| |||
TGGCCCACCTGGTACTGGAAAGACAATGCTTGCTAAGGCTGTGGCAACTGAGGCTGGTGCTAATTTCATAAACATATCGATGTCAAGCATCTCTTCAAAGgta---cttatcaattgg-acaagcctctgttttttggcagttgagtatctgcattatagcatctaaataacctattttccag

upper sequence: AT4G02480.1 (Arabidopsis thaliana), 5'ss of exon 21
lower sequence: GLYMA02G17410.1 (Glycine max), 5'ss of exon 17
TGGACCTCCTGGTACTGGAAAGACGATGCTGGCAAAAGCAGTAGCAACTGAGGCTGGCGCAAATTTCATCAATATCTCAATGTCCAGCATTACTTCGAAGgta--actctcataaagtgatatgatttccttttatgctttcttttaatgattgtacttgaccatttacactaaatgctttgcag---
||| || ||||| || ||||| || ||||| ||||| || ||||||||||| ||||| ||||||||||| || || |||||||||||||||||||| ||||||  | | |  |||| |  | |  |||  || | |  || ||| || || ||    |  |  |   |||     |  ||||  |   
TGGGCCCCCTGGCACAGGAAAAACAATGCTTGCAAAGGCTGTAGCAACTGAAGCTGGAGCAAATTTCATTAACATTTCAATGTCCAGCATTACTTCAAAGgtatcaatattgtaaattacttt--ttttgttgtgtatttccttgta-tgcttcagttacaagaaaaacatggttttgtttgttgcag

upper sequence: AT4G02480.1 (Arabidopsis thaliana), 5'ss of exon 21
lower sequence: GLYMA10G02400.1 (Glycine max), 5'ss of exon 21
TGGACCTCCTGGTACTGGAAAGACGATGCTGGCAAAAGCAGTAGCAACTGAGGCTGGCGCAAATTTCATCAATATCTCAATGTCCAGCATTACTTCGAAGgtaactctcata-aagtgatatgatttccttttatgctttcttttaatgatt--gt-acttgaccatttacactaaatgctttgcag
||| || ||||| || ||||| || ||||| ||||| || ||||||||||| ||||| ||||||||||| || || |||||||||||||||||||| ||||||    |  |  |||| |  |  |||  |  | |  || ||| || || ||  || ||  ||  | |     |   |   ||||||
TGGGCCCCCTGGCACAGGAAAAACAATGCTTGCAAAGGCTGTAGCAACTGAAGCTGGAGCAAATTTCATTAACATTTCAATGTCCAGCATTACTTCAAAGgtattaatgttgtaagttacttttttttgtggtgtatttccttgta-tgcttcagtgacaagaaaaatatggttttgtttgttgcag

upper sequence: AT4G02480.1 (Arabidopsis thaliana), 5'ss of exon 21
lower sequence: GLYMA10G02410.1 (Glycine max), 5'ss of exon 18
TGGACCTCCTGGTACTGGAAAGACGATGCTGGCAAAAGCAGTAGCAACTGAGGCTGGCGCAAATTTCATCAATATCTCAATGTCCAGCATTACTTCGAAGgtaactctcataaagtgatatgatttcctt-----ttatgctttcttttaatgatt-gtacttgaccatttacactaaatgctttgcag
||| |||||||| || ||||| || ||||| ||||| || ||||||||||| ||||| |||||||| || || || ||||||||||||||||| || ||||||    |   ||| | | |   |||   |     || |  || |||| | | ||  ||    |   |  ||   |   |   ||||||
TGGCCCTCCTGGCACAGGAAAAACAATGCTTGCAAAGGCTGTAGCAACTGAAGCTGGAGCAAATTTTATTAACATTTCAATGTCCAGCATTACGTCCAAGgtattagttgcaaatttaaacagttttgctctactttgtatttcctttcattcataagtgacaggatagatattgtttttttgttgcag

upper sequence: AT4G02480.1 (Arabidopsis thaliana), 5'ss of exon 21
lower sequence: GLYMA02G17400.1 (Glycine max), 5'ss of exon 18
TGGACCTCCTGGTACTGGAAAGACGATGCTGGCAAAAGCAGTAGCAACTGAGGCTGGCGCAAATTTCATCAATATCTCAATGTCCAGCATTACTTCGAAGgtaactctcataaagtgatatgatttcctttta-----tgctttcttttaatgattgtacttgaccatttacactaaatgctttgcag
||| || ||||| || ||||| || ||||| ||||| || || |||||||| ||||| |||||||| || || || ||||||||||||||||| || ||||||    |   ||| | | |   |||   | ||     |  |||| ||| ||   | ||  ||||    ||   |   |   ||||||
TGGCCCCCCTGGCACAGGAAAAACAATGCTTGCAAAGGCTGTGGCAACTGAAGCTGGAGCAAATTTTATTAACATTTCAATGTCCAGCATTACATCCAAGgtattagttgcaaatttaaactgttttgctctactctgtattttcctttcattcat-taagtgacaggatattgtttttttgttgcag

upper sequence: AT4G02480.1 (Arabidopsis thaliana), 5'ss of exon 21
lower sequence: Vv07s0005g00200.t01 (Vitis vinifera), 5'ss of exon 21
TGGACCTCCTGGTACTGGAAAGACGATGCTGGCAAAAGCAGTAGCAACTGAGGCTGGCGCAAATTTCATCAATATCTCAATGTCCAGCATTACTTCGAAGgtaactctcataaagtgatatgatttccttttatgctttcttttaatgattgtactt---gaccattt---acactaa-atgctttgcag
||| |||||||| |||||||| || ||||| || || || || ||||||||||| || |||||||| ||||| || |||||||| || || ||||| ||||||| | |  |  |   | ||| |  |  |  | ||| ||||||     |  |  ||    |  ||||   |  || | ||   ||||||
TGGGCCTCCTGGGACTGGAAAAACAATGCTTGCGAAGGCGGTTGCAACTGAGGCAGGTGCAAATTTTATCAACATATCAATGTCTAGTATCACTTCAAAGgtaaatat-gtgcatcaaaatggtgactatgca-gctctcttttgcaagtcttgttttgaaaatatttgacatcctgatattgcttgcag

upper sequence: AT4G02480.1 (Arabidopsis thaliana), 5'ss of exon 21
lower sequence: EFJ31084 (Selaginella moellendorffii), 5'ss of exon 9
TGGACCTCCTGGTACTGGAAAGACGATGCTGGCAAAAGCAGTAGCAACTGAGGCTGGCGCAAATTTCATCAATATCTCAATGTCCAGCATTACTTCGAAGgtaa-ctctcataaagtgatatgatttccttttatgctttcttttaatgattgtacttgaccatttacactaaatgctttgcag
||| ||||| || ||||| ||||| ||||| || || || || || || |||||||| ||||||||||||||||| ||||||||||  ||| | || || |||| | || |  | ||||||   ||    ||||   |||  |||  |    |                               
TGGTCCTCCAGGAACTGGTAAGACCATGCTTGCTAAGGCGGTTGCTACAGAGGCTGGTGCAAATTTCATCAATATTTCAATGTCCACAATTGCATCTAAAgtaagcacttaccacgtgatagtgttcaagtttaccgttttctttcttcgcag-------------------------------

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|86063354|gb|DR359111.1|DR359111
EST:     AGGCTGGCGCAAATTTCATCAATATCTCAATGTCCAGCATTACTTCGAAG                         TGGTTTGGTGAGGGAGAGAAGTACGTTAAAGCTGTCTTCTCCTTANCGAGC
genomic: AGGCTGGCGCAAATTTCATCAATATCTCAATGTCCAGCATTACTTCGAAGgtaactctca ... tgctttgcagTGGTTTGGTGAGGGAGAGAAGTACGTTAAAGCTGTCTTCTCCTTAGCGAGC
EST: gi|124746621|gb|EH836941.1|EH836941
EST:     AGGCTGGCGCAAATTTCATCAATATCTCAATGTCCAGCATTACTTCGAAG                         TGGTTTGGTGAGGGAGAG
genomic: AGGCTGGCGCAAATTTCATCAATATCTCAATGTCCAGCATTACTTCGAAGgtaactctca ... tgctttgcagTGGTTTGGTGAGGGAGAG