Skip to another splice site:
1  
 5'  3'   		2  
 5'  3'   		3  
 5'  3'   		4  
 5'  3'   		5  
 5'  3'   		6  
 5'  3'   		7  
 5'  3'   		8  
 5'  3'   		9  
 5'  3'   		10  
 5'  3'   		11  
 5'  3'   		12  
 5'  3'   		13  
 5'  3'   		14  
 5'  3'   		15  
 5'  3'   		16  
 5'  3'   		17  
 5'  3'   		18  
 5'  3'   		19  
 5'  3'   		20  
 5'  3'   
21  
 5'  3'   		22  
 5'  3'   		23  
 5'  3'   

Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtataacaagtttatgagcatcttctgatttcattgttatagatttttcacttgctgtatattgccttgtatagtctgtcgctgttactgaaatttatatatgactttgcagTTAGGTCGGCCAAGTTTATTCCGCGCAAGCAATGGGTTGTGGCTGGAGCGGATGATATGTACATCCGTGTATACAATTACAATACAATGGACAAGGTCAA

Basic information

species Arabidopsis thaliana
transcript AT3G15980.2
intron # 5
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: AT3G15980.2 (Arabidopsis thaliana), 3'ss of exon 5
lower sequence: LOC_Os02g11830.2 (Oryza sativa), 3'ss of exon 5
gtataacaagtttatgagcatcttctgatttcattgttatagatttttcacttgctgtatattgccttgtatagtctgtcgctgttactgaaatttatatatgactttgcagTTAGGTCGGCCAAGTTTATTCCGCGCAAGCAATGGGTTGTGGCTGGAGCGGATGATATGTACATCCGTGTATACAATTACAATACAATGGACAAGGTCAA
                                     |||   ||     ||    |  || | |  ||| |  | |  |    || || | ||    ||     ||| ||||| ||||  | || |||||  | || || |||||||| || ||||| || || ||||||| ||| ||||| |||||||||||||| ||||| ||||||||
------------------------------------gtatgctttcccacctcatcgcttacttc--tgtttgatataccatc-ttgctaatataatcatccccattt-cagTTCGGTCATCTAAATTTATCACACGGAAACAATGGGTAGTTGCTGGTGCCGACGATATGTTCATACGTGTGTACAATTACAATACGATGGATAAGGTCAA

upper sequence: AT3G15980.2 (Arabidopsis thaliana), 3'ss of exon 5
lower sequence: LOC_Os06g05180.1 (Oryza sativa), 3'ss of exon 5
gtataacaagtttatgagcatcttctgatttcattgttatagatttttcacttgctgtatattgccttgtatagtctgtcgctgttactgaaatttatatatgactttgcagTTAGGTCGGCCAAGTTTATTCCGCGCAAGCAATGGGTTGTGGCTGGAGCGGATGATATGTACATCCGTGTATACAATTACAATACAATGGACAAGGTCAA
               |  | || |||| ||   ||   ||  | |    |  ||   || |       |  |    ||  |||   |||   || |     | | ||  ||||  |||| || || |||||| | || || ||||||||||| ||||| || || ||||||| ||| ||||| ||||| ||||| || |||||||| || ||
---------------gtac-tcatctgcttatgttcacatgaaatgaaaatctgtcataga-------ggttgaattgatgcta--acttgtatctgatcttaattt--cagTGCGGTCAGCAAAATTTATTTCACGGAAACAATGGGTTGTAGCTGGTGCAGACGATATGTTCATTCGTGTCTACAACTACAACACGATGGACAAAGTTAA

upper sequence: AT3G15980.2 (Arabidopsis thaliana), 3'ss of exon 5
lower sequence: GRMZM2G124886_T04 (Zea mays), 3'ss of exon 5
gtataacaagtttatgagcatcttctgatttcattgttatagatttttcacttgctgtatattgcct-tgtatagtctgtcgctgttactgaaatttatatatgactttgcagTTAGGTCGGCCAAGTTTATTCCGCGCAAGCAATGGGTTGTGGCTGGAGCGGATGATATGTACATCCGTGTATACAATTACAATACAATGGACAAGGTCAA
                                     |||         |||| |||| |  | | | |   |    | |   |  | || | ||| |   |  | ||  ||||| | ||||| || |||||| | || |||||||||||||| ||||| || |||||||||| ||||||||| ||||| || || |||||||||||||||||
------------------------------------gtatgctcacccaactttctgtgtgcttcttgtccgtgaggtttacttcatgctaatattcaataacaattt--cagTTCGTTCGGCTAAATTTATTGCACGTAAGCAATGGGTTGTTGCTGGTGCCGATGATATGTTCATCCGTGTGTACAACTATAACACAATGGACAAGGTCAA

upper sequence: AT3G15980.2 (Arabidopsis thaliana), 3'ss of exon 5
lower sequence: GRMZM2G141587_T01 (Zea mays), 3'ss of exon 5
gtataacaagtttatgagcatcttctgatttcattgttatagatttttcacttgctgtatattgccttgtatagtctgtcgctgttactgaaatttatatatgactttgcagTTAGGTCGGCCAAGTTTATTCCGCGCAAGCAATGGGTTGTGGCTGGAGCGGATGATATGTACATCCGTGTATACAATTACAATACAATGGACAAGGTCAA
                              |       |   |||||   |||||| | | || ||||   |  |   ||     | |||| |||   |||  | ||| ||||| | ||||| || |||||| | || |||||||||||||| ||||| || || ||||||| ||||||||| ||||| || || |||||||||||||||||
-----------------------------gtatgcacaaccaattttctgcttgct-tctcttcccttaggtt-tacatca----tgctgatattc-cataacaattt-cagTTCGTTCGGCTAAATTTATTGCACGTAAGCAATGGGTTGTTGCTGGTGCCGACGATATGTTCATCCGTGTGTACAACTATAACACAATGGACAAGGTCAA

upper sequence: AT3G15980.2 (Arabidopsis thaliana), 3'ss of exon 5
lower sequence: GRMZM2G443953_T01 (Zea mays), 3'ss of exon 6
gtataacaagtttatgagca-tcttctgatttcattgttatagatttttcacttgctgtatattgccttgtatagtctgtcgctgttactgaaatttatatatgactttgcagTTAGGTCGGCCAAGTTTATTCCGCGCAAGCAATGGGTTGTGGCTGGAGCGGATGATATGTACATCCGTGTATACAATTACAATACAATGGACAAGGTCAA
        ||| || ||  | ||     |   ||||  | |     |     || ||||||      |||| |  |    |  |  | || |  |    || | | || |||||| | ||||| || |||||| | |  |||||||||||||| ||||| || ||||| |||| ||||||||| || || || ||||| ||||| ||||||||
------tgagtctaagaagactcaaacaagcccattactgt----ctacagttttctgtatgca--tttgtgtttttgtgcaattatgctcatgtaaccatgttaatt-gcagTTCGTTCGGCTAAATTTATTGCACAGAAGCAATGGGTTGTTGCTGGTGCCGATGACATGTTCATCCGTGTGTATAACTATAATACCATGGATAAGGTCAA

upper sequence: AT3G15980.2 (Arabidopsis thaliana), 3'ss of exon 5
lower sequence: GRMZM2G419984_T01 (Zea mays), 3'ss of exon 4
gtataacaagtttatgagcatcttctgatttcattgttatagatttttcacttgctgtatattgccttgtatagtctgtcgctgttactgaaatttatatatgactttgcagTTAGGTCGGCCAAGTTTATTCCGCGCAAGCAATGGGTTGTGGCTGGAGCGGATGATATGTACATCCGTGTATACAATTACAATACAATGGACAAGGTCAA
             |  || |      ||   |    ||||   | | | || |     |||   ||| | | |       | || || || |  || || |    ||| |||| |||||||| ||||||||| |  | || ||||||||||| ||||| || || || |||| ||| ||||| ||||| |||||||| |||||||| || ||
----------ggcaccagtaaaagtagaaaac-ccattatgagtatataacatagaagataactcctggca-atcagaatgatgctaatgtatattttaaacttattttcagTGAGGTCGGCAAAGTTTATTTCAAGGAAACAATGGGTTGTAGCTGGTGCAGACGACATGTTCATTCGTGTCTACAACTACAATACCATGGACAAAGTTAA

upper sequence: AT3G15980.2 (Arabidopsis thaliana), 3'ss of exon 5
lower sequence: GRMZM2G000645_T03 (Zea mays), 3'ss of exon 5
gtataacaagtttatgagcatcttctgatttcattgttatagatttttcacttgctgtatattgccttgtatagtctgtcgctgttactgaaatttatatatgactttgcagTTAGGTCGGCCAAGTTTATTCCGCGCAAGCAATGGGTTGTGGCTGGAGCGGATGATATGTACATCCGTGTATACAATTACAATACAATGGACAAGGTCAA
                          |  | ||  |   |    ||  |       |   | | ||| | | |       | || || || |  || || |    ||| |||| |||||||| ||||||||| |  | || ||||||||||| ||||| || || || |||| ||| ||||| ||||| |||||||| |||||||| || ||
--------------------------gtgtccaaagcacttagattcacgtggaaagagaact-cctggca-atcagaatgatgctaatgtatattttaaacttattttcagTGAGGTCGGCAAAGTTTATTTCAAGGAAACAATGGGTTGTAGCTGGTGCAGACGACATGTTCATTCGTGTCTACAACTACAATACCATGGACAAAGTTAA

upper sequence: AT3G15980.2 (Arabidopsis thaliana), 3'ss of exon 5
lower sequence: GRMZM2G095348_T02 (Zea mays), 3'ss of exon 4
gtataacaagtttatgagcatcttctgatttcattgttatagatttttcacttgctgtatattgccttgtatagtctgtcgctgttactgaaatttatatatgactttgcagTTAGGTCGGCCAAGTTTATTCCGCGCAAGCAATGGGTTGTGGCTGGAGCGGATGATATGTACATCCGTGTATACAATTACAATACAATGGACAAGGTCAA
                              |         |  |  |||||  |  |         |||   |    |  | || || || |  || |  |    ||| |||| |||||||| || |||||| |  | || ||||||||||| ||||| || || || |||| ||| ||||| ||||| |||||||| |||||||| |||||
-----------------------------gtacccaaagcacttagttcacgcggagagagaacttttggcgatcaggatgatgctaatgtatattttgaacttattttcagTGAGGTCGGCAAAATTTATTTCAAGGAAACAATGGGTTGTAGCTGGTGCAGACGACATGTTCATTCGTGTCTACAACTACAATACCATGGACAAAGTCAA

upper sequence: AT3G15980.2 (Arabidopsis thaliana), 3'ss of exon 5
lower sequence: GLYMA15G01680.1 (Glycine max), 3'ss of exon 5
--------------------------------------gtataacaagtttatga-gcatct-tctgatttcattgttatagatttttcacttgctgtatattgccttgtatagt-ctgtcgctgttactgaaatttata-tatgactttgcagTTAGGTCGGCCAAGTTTATTCCGCGCAAGCAATGGGTTGTGGCTGGAGCGGATGATATGTACATCCGTGTATACAATTACAATACAATGGACAAGGTCAA
                                      ||||| | |  |  ||| |||| |   |||   ||   || |   | | |   |     | | || | | | | |   |||  ||| |||   || | || |  |||| ||||||||||| ||||||||||||||| | ||||| || |||||||| |||||||| ||||||||||  ||||||||||| |||||||| |||||||| || |||||
gtacttgaagacgtgaaccttttttggtccatttgtttgtatatctacctcttgatgcatttgcttgaagacacacttttctttgtatatttcatgatttcttacttagaagatcactggagctcttatacaagtatacaacatgattttgcagTTAGATCGGCCAAGTTTATTGCACGCAAACAGTGGGTTGTTGCTGGAGCAGATGATATGTTTATCCGTGTATATAATTACAACACAATGGATAAAGTCAA

upper sequence: AT3G15980.2 (Arabidopsis thaliana), 3'ss of exon 5
lower sequence: GLYMA13G43680.2 (Glycine max), 3'ss of exon 5
gtataacaagtttatgagcatcttctgatttcattgtt-----atagattttt-----cacttgct-----gtatattgccttgtatagtctgtcgctgtt-------------actgaaatttatata-----tgactttgcagTTAGGTCGGCCAAGTTTATTCCGCGCAAGCAATGGGTTGTGGCTGGAGCGGATGATATGTACATCCGTGTATACAATTACAATACAATGGACAAGGTCAA
||| |  ||||  |||| | | ||||| |    |||||     ||| || | |     || |||||       |  || | ||||||| |   |   |  |             ||||||  |  ||||     ||| ||||||||||| ||||||||||||||| | ||||| || |||||||| |||||||| ||||||||||  || |||||||| |||||||| |||||||| || |||||
gtacatgaagtc-atgaaccttttctggtccatttgtttgtctatatatctcttgatgcatttgcttgaagacacttttctttgtatatttcatgatttcttacttagaagaccactgaagctcttatacaacatgattttgcagTTAGATCGGCCAAGTTTATTGCACGCAAACAGTGGGTTGTTGCTGGAGCAGATGATATGTTTATTCGTGTATATAATTACAACACAATGGATAAAGTCAA

upper sequence: AT3G15980.2 (Arabidopsis thaliana), 3'ss of exon 5
lower sequence: GLYMA08G22140.1 (Glycine max), 3'ss of exon 5
--gtataacaagtttatgagcatcttc--tgatttcattgttatagattt-ttcacttgctgtatattgccttgtatagtctgtcgctgttactgaaatttatat-----atgactttgcagTTAGGTCGGCCAAGTTTATTCCGCGCAAGCAATGGGTTGTGGCTGGAGCGGATGATATGTACATCCGTGTATACAATTACAATACAATGGACAAGGTCAA
  |  |      ||| |   |   |||  ||||   ||   |     ||  |||| |||||  || |    || | |  | | |   | | |  |    | ||||     |||| |||||||||||||| |||||||||||| | ||||| || |||||||| || || || ||||||||||  || |||||||| |||||||| |||||||| || || ||
gtgggtggacgttttttagtctatttcattgatcgtatatctgcctcttgattcatttgcttgatgtcattttctttc-tttatatatttcatggggtctcatatgcagcatgattttgcagTTAGGTCAGCCAAGTTTATTGCACGCAAACAGTGGGTTGTTGCAGGGGCAGATGATATGTTTATTCGTGTATATAATTACAACACAATGGATAAAGTTAA

upper sequence: AT3G15980.2 (Arabidopsis thaliana), 3'ss of exon 5
lower sequence: GLYMA07G03890.1 (Glycine max), 3'ss of exon 5
--gtataacaagtttatgagcatcttc--tgatttcattgttatagattt-ttcacttgctgtatattgccttgtatagtctgtcgctgttactgaaatttatata-----tgactttgcagTTAGGTCGGCCAAGTTTATTCCGCGCAAGCAATGGGTTGTGGCTGGAGCGGATGATATGTACATCCGTGTATACAATTACAATACAATGGACAAGGTCAA
  |  | |    |||||   |   |||  || ||   |   |     ||  |||| |||||  |  |    || | |  | |||   | | | ||    | |||||     ||| |||||||||||||| |||||||||||| | ||||| || |||||||| || || || ||||||||||  || |||||||| |||||||| |||||||| || || ||
gtgggtgaacgttttatagtctatttcattggttgtgtatctgccttttgattcatttgcttgaagtcattttttttc-tttgtatatttca-tgggtctcatatacagcatgattttgcagTTAGGTCAGCCAAGTTTATTGCACGCAAACAGTGGGTTGTTGCAGGGGCAGATGATATGTTTATTCGTGTATATAATTACAACACAATGGATAAAGTTAA

upper sequence: AT3G15980.2 (Arabidopsis thaliana), 3'ss of exon 5
lower sequence: Vv09s0002g04810.t01 (Vitis vinifera), 3'ss of exon 5
----gtataacaagtttatgagcatct-tctgatttcattgttatagattt-ttcacttgctgtatattgccttgtatagtctgtcgctg------ttactgaa------atttatatatgact-ttgcagTTAGGTCGGCCAAGTTTATTCCGCGCAAGCAATGGGTTGTGGCTGGAGCGGATGATATGTACATCCGTGTATACAATTACAATACAATGGACAAGGTCAA
    ||| |   | |||||  |  ||  | || | |  ||| | |   |   ||| |||| |  || ||  ||    |  ||| |   ||      ||| |  |      | || || || |   ||||||||||||| || ||||||||  | ||||||||||||||||| |||||||| ||||||||||  || |||||||||||||| || |||||||| ||||| ||
gtatgtacatgtactttatctgtttccatatgctctatttggtgtgattgaattcccttgatccatttttactcaatttctctcttattggtaaggttattacatgtttcaattttacattatcattgcagTTAGGTCAGCGAAGTTTATAGCACGCAAGCAATGGGTTGTTGCTGGAGCTGATGATATGTTTATTCGTGTATACAATTATAACACAATGGATAAGGTTAA

upper sequence: AT3G15980.2 (Arabidopsis thaliana), 3'ss of exon 5
lower sequence: Vv11s0016g04180.t01 (Vitis vinifera), 3'ss of exon 5
gtataacaagtttatgagcatcttctgatttcattgttatagatttttcacttgctgtatattgccttgtatagtctgtcgctgttactgaaatttata-tatgactttgcagTTAGGTCGGCCAAGTTTATTCCGCGCAAGCAATGGGTTGTGGCTGGAGCGGATGATATGTACATCCGTGTATACAATTACAATACAATGGACAAGGTCAA
                           || | |||  || |    ||| | || ||  |    | ||||    |  ||    | | | | | || ||    ||    |||||||  |||| || || |||||  | || ||||| ||||| || |||||||| ||||| ||||  ||||||||||||||||||||||| ||||| ||||| | 
-------------------------gtatgttattcatacatgacttttaatttctcca----gtcttg----gcatggtaatttcatttacatctaaggcatctgcttgcagTCCGGTCAGCAAAATTTATAGCTCGTAAGCAGTGGGTGGTTGCTGGAGCTGATGACATGTTTATCCGTGTATACAATTACAATACTATGGATAAGGTTAC

upper sequence: AT3G15980.2 (Arabidopsis thaliana), 3'ss of exon 5
lower sequence: PP1S61_1V6.1 (Physcomitrella patens), 3'ss of exon 5
gtataacaagtttatgagcatcttctgatttcattgttatagatttttcac-ttgc-------tgtatattgccttgtata--------gtctgtcgctgttactgaaatttatatatgactttgcagTTAGGTCGGCCAAGTTTATTCCGCGCAAGCAATGGGTTGTGGCTGGAGCGGATGATATGTACATCCGTGTATACAATTACAATACAATGGACAAGGTCAA
|||||     ||  ||| ||  |      || ||| || ||||||  | |   |||        ||| | |   |||  ||         | |   |||| | || ||  || | | | |  | |||||  | || || ||||||||    || ||||| ||| ||||| |||| |||||||| |||| |||||| || || |||||||| ||||||||||| || ||
gtatact---ttattgatcacttgaaagctttatttttgtagattcatgaagctgcggatctgcgtaaacttttttgcttaccacgagaatttcgtgctgatgctcaa--ttctttcttatatggcagTGCGATCTGCGAAGTTTATATTTCGGAAGCAGTGGATTGTGACTGGTGCGGATGACATGTTCATCCGAGTCTATAATTACAACACAATGGACAAAGTGAA

upper sequence: AT3G15980.2 (Arabidopsis thaliana), 3'ss of exon 5
lower sequence: EFJ09529 (Selaginella moellendorffii), 3'ss of exon 2
-------gtataacaagtttatgagcatcttctgatttcattgttatagatttttcacttgctgtatattgccttgtata-gtctgtcgctgttactgaaatttatatatgactttgcagTTAGGTCGGCCAAGTTTATTCCGCGCAAGCAATGGGTTGTGGCTGGAGCGGATGATATGTACATCCGTGTATACAATTACAATACAATGGACAAGGTCAA
        |  |     ||| |     ||    ||    ||| ||  |  | | |   |||||  || | |  || | || || | || ||    |      | || | |  ||| | |||  | ||||||||||| ||  |||| ||||| ||| | || ||||| || || || |||||||| || || ||||| |||||||| ||||||||||||||
gtaacttttggagtggatttctctaagtccctcgagagtatttttccaagtctgtg--ttgctccatctcgatttttctaagtttctctctaaaccattgtgtgatctcttgctt-gtagTCCGCTCGGCCAAGTTCATATCGCGAAAGCAGTGGATAGTCGCTGGTGCCGACGACATGTACATTCGAGTCTACAACTACAATACCATGGACAAGGTCAA

upper sequence: AT3G15980.2 (Arabidopsis thaliana), 3'ss of exon 5
lower sequence: EFJ36319 (Selaginella moellendorffii), 3'ss of exon 2
-------gtataacaagtttatgagcatcttctgatttcattgttatagatttttcacttgctgtatattgccttgtata-gtctgtcgctgttactgaaatttatatatgactttgcagTTAGGTCGGCCAAGTTTATTCCGCGCAAGCAATGGGTTGTGGCTGGAGCGGATGATATGTACATCCGTGTATACAATTACAATACAATGGACAAGGTCAA
        |  |  || ||| |     ||   |||    ||| ||  |  | | |   |||||  || | |  || | || || | || ||   |       | || | |  ||| | |||  | ||||||||||| ||  |||| ||||| ||| | || ||||| || || || |||||||| || || ||||| |||||||| ||||||||||||||
gtaacttttggagtaaatttctctaagtcccttgagagtatttttccaagtctgtg--ttgctccatctcgatttttctaagtttctctctaaaaaattgtgtgatctcttgctt-gtagTCCGCTCGGCCAAGTTCATATCGCGAAAGCAGTGGATAGTCGCTGGTGCCGACGACATGTACATTCGAGTCTACAACTACAATACCATGGACAAGGTCAA

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|116382436|gb|EG425028.1|EG425028
EST:     ACGATTACAAAATCCTTCGAGGTGACGGAATTGCCAG                         TTAGGTCGGCCAAGTTTATTCCGCGCAAGCAATGGGTTGTGGCTGGAGCGG
genomic: ACGATTACAAAATCCTTCGAGGTGACGGAATTGCCAGgtataacaag ... gactttgcagTTAGGTCGGCCAAGTTTATTCCGCGCAAGCAATGGGTTGTGGCTGGAGCGG
EST: gi|116382435|gb|EG425027.1|EG425027
EST:     ACGATTACAAAATCCTTCGAGGTGACGGAATTGCCAG                         TTAGGTCGGCCAAGTTTATTCCGCGCAAGCAATGGGTTGTGGCTGGAGCGG
genomic: ACGATTACAAAATCCTTCGAGGTGACGGAATTGCCAGgtataacaag ... gactttgcagTTAGGTCGGCCAAGTTTATTCCGCGCAAGCAATGGGTTGTGGCTGGAGCGG
EST: gi|116382437|gb|EG425029.1|EG425029
EST:     ACGATTACAAAATCCTTCGAGGTGACGGAATTGCCAG                         TTAGGTCGGCCAAGTTTATTCCGCGCAAGCAATGGGTTGTGGCTGGAGCGG
genomic: ACGATTACAAAATCCTTCGAGGTGACGGAATTGCCAGgtataacaag ... gactttgcagTTAGGTCGGCCAAGTTTATTCCGCGCAAGCAATGGGTTGTGGCTGGAGCGG
EST: gi|116382434|gb|EG425026.1|EG425026
EST:     ACGATTACAAAATCCTTCGAGGTGACGGAATTGCCAG                         TTAGGTCGGCCAAGTTTATTCCGCGCAAGCAATGGGTTGTGGCTGGAGCGG
genomic: ACGATTACAAAATCCTTCGAGGTGACGGAATTGCCAGgtataacaag ... gactttgcagTTAGGTCGGCCAAGTTTATTCCGCGCAAGCAATGGGTTGTGGCTGGAGCGG


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

tatattgccttgtatagtctgtcgctgttactgaaatttatatatgactttgcagTTAGGTCGGCCAAGTTTATTCCGCGCAAGCAATGGGTTGTGGCTGGAGCGGATGATATGTACATCCGTGTATACAATTACAATACAATGGACAAGGTCAA
                           ttactgaaatttatat  TA-rich tract