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'   

Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtcagttttctacttccctaaactcactgcatcacttttttctttatccagtgattcctttaagattctcattggcctgtttgtcatttgtagAAATCCGCATTGCTAGAATCTTCAACACATATGGTCCTCGAATGAACATCGATGATGGGCGTGTTGTGAGCAACTTCATTGCTCAAGCACTCCG

Basic information

species Arabidopsis thaliana
transcript AT5G59290.2
intron # 7
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: AT5G59290.2 (Arabidopsis thaliana), 3'ss of exon 7
lower sequence: LOC_Os03g16980.3 (Oryza sativa), 3'ss of exon 7
gtcagttttctacttccctaaactcactgcatcacttttttctttatccagtgattcctttaagattctcattggcctgtttgtcatttgtagAAATCCGCATTGCTAGAATCTTCAACACATATGGTCCTCGAATGAACATCGATGATGGGCGTGTTGTGAGCAACTTCATTGCTCAAGCACTCCG
|| |  ||| || |||    | ||   ||  |     | | ||  ||   ||  |||   | | ||    |||  ||  | | || | |||||| ||||| ||||| || || |||||||| ||||| ||| | |||||||| ||||||||||||||||| || |||||||||||||| ||  | ||
gtaatatttttagttcat--acctttttgtcttgtgatgtactggatt--gtagttctcctta-ataagtattttccaatctatc-tctgtagAGATCCGAATTGCCAGGATTTTCAACACCTATGGACCTAGGATGAACATTGATGATGGGCGTGTTGTTAGTAACTTCATTGCTCAGGCCGTACG

upper sequence: AT5G59290.2 (Arabidopsis thaliana), 3'ss of exon 7
lower sequence: LOC_Os03g16980.5 (Oryza sativa), 3'ss of exon 8
gtcagttttctacttccctaaactcactgcatcacttttttctttatccagtgattcctttaagattctcattggcctgtttgtcatttgtagAAATCCGCATTGCTAGAATCTTCAACACATATGGTCCTCGAATGAACATCGATGATGGGCGTGTTGTGAGCAACTTCATTGCTCAAGCACTCCG
|| |  ||| || |||    | ||   ||  |     | | ||  ||   ||  |||   | | ||    |||  ||  | | || | |||||| ||||| ||||| || || |||||||| ||||| ||| | |||||||| |||||||||||||||                             
gtaatatttttagttcat--acctttttgtcttgtgatgtactggatt--gtagttctcctta-ataagtattttccaatctatc-tctgtagAGATCCGAATTGCCAGGATTTTCAACACCTATGGACCTAGGATGAACATTGATGATGGGCGTGTT-----------------------------

upper sequence: AT5G59290.2 (Arabidopsis thaliana), 3'ss of exon 7
lower sequence: GRMZM2G157772_T02 (Zea mays), 3'ss of exon 4
gtcagttttctacttccctaaactcactgcatcacttttttctttatccagtgattcc---tttaagattctcat--tggcc-tgtttgtcattt------gtagAAATCCGCATTGCTAGAATCTTCAACACATATGGTCCTCGAATGAACATCGATGATGGGCGTGTTGTGAGCAACTTCATTGCTCAAGCACTCCG
       ||  |||||  ||     |   |||  |  | ||  ||||    | | ||     ||| |||| |  |  |  |  | ||| |||| |      ||||||||||| ||||| || || |||||||| ||||| ||| | |||||||| |||||||| |||||||| ||||||||||||||||| ||  | ||
-----acttaaacttcaatattagtagctcatagccctctttgttatgagataactctgggcttatgatttttttcttaacagtatttatcatctatgtctgtagAAATCCGAATTGCCAGGATTTTCAACACCTATGGGCCTAGGATGAACATTGATGATGGTCGTGTTGTTAGCAACTTCATTGCTCAGGCTGTGCG

upper sequence: AT5G59290.2 (Arabidopsis thaliana), 3'ss of exon 7
lower sequence: GRMZM2G157772_T01 (Zea mays), 3'ss of exon 5
------gtcagttttctactt---ccctaaactcactg---catcacttttttctttatccagtgattcc---tttaagattctcat--tggcc-tgtttgtcat------ttgtagAAATCCGCATTGCTAGAATCTTCAACACATATGGTCCTCGAATGAACATCGATGATGGGCGTGTTGTGAGCAACTTCATTGCTCAAGCACTCCG
       |   | ||  ||||   |   ||  | | |    |||  |  | ||  ||||    | | ||     ||| |||| |  |  |  |  | ||| ||||       |||||||||||| ||||| || || |||||||| ||||| ||| | |||||||| |||||||| |||||||| ||||||||||||||||| ||  | ||
gtaacacttcatctttcacttaaacttcaatattagtagctcatagccctctttgttatgagataactctgggcttatgatttttttcttaacagtatttatcatctatgtctgtagAAATCCGAATTGCCAGGATTTTCAACACCTATGGGCCTAGGATGAACATTGATGATGGTCGTGTTGTTAGCAACTTCATTGCTCAGGCTGTGCG

upper sequence: AT5G59290.2 (Arabidopsis thaliana), 3'ss of exon 7
lower sequence: GRMZM2G300412_T01 (Zea mays), 3'ss of exon 14
------gtcagttttctactt---ccctaaactcactgcatcacttttttctttatccagtgattcctttaagattctcattggcct----------gtttgtcat------ttgtagAAATCCGCATTGCTAGAATCTTCAACACATATGGTCCTCGAATGAACATCGATGATGGGCGTGTTGTGAGCAACTTCATTGCTCAAGCACTCCG
       |   | ||  ||||   |   ||  | | |   |||   |  ||||| |   |||||  || |  | || | |||    |          |||| ||||       |||||||||||| ||||| || || |||||||| ||||| ||| | |||||||| |||||||| |||||||| ||||||||||||||||| ||  | ||
gtaacacttcatctttcacttaaacttcaatattagtagctcatagtcctctttgttatgtgataactctgggcttatgattttttttcttaacagtgtttatcatctatgtctgtagAAATCCGGATTGCCAGGATTTTCAACACCTATGGGCCTAGGATGAACATTGATGATGGCCGTGTTGTTAGCAACTTCATTGCTCAGGCTGTGCG

upper sequence: AT5G59290.2 (Arabidopsis thaliana), 3'ss of exon 7
lower sequence: GRMZM2G165357_T02 (Zea mays), 3'ss of exon 7
------gtcagttttctactt---ccctaaactcactg---catcacttttttctttatccagtgattcc---tttaagattctc-attggcc-tgtttgtcatt------tgtagAAATCCGCATTGCTAGAATCTTCAACACATATGGTCCTCGAATGAACATCGATGATGGGCGTGTTGTGAGCAACTTCATTGCTCAAGCACTCCG
       |   | ||  ||||   |   ||  | | |    |||  |  | ||  ||||    | | ||     ||| |||| |  |||  |  | ||| ||||       |||||||||||| ||||| || || |||||||| ||||| ||| | |||||||| |||||||| |||||||| ||||||||||||||||| ||  | ||
gtaacacttcatctttcacttaaacttcaatattagtagctcatagccctctttgttatgtgataactctgggcttatgattttttattaacagtatttatcatctatgtctgtagAAATCCGGATTGCCAGGATTTTCAACACCTATGGGCCTAGGATGAACATTGATGATGGCCGTGTTGTTAGCAACTTCATTGCTCAGGCTGTGCG

upper sequence: AT5G59290.2 (Arabidopsis thaliana), 3'ss of exon 7
lower sequence: GRMZM2G177373_T02 (Zea mays), 3'ss of exon 8
------gtcagttttctactt---ccctaaactcactgcatcacttttttctttatccagtgattcctttaagattctcattggcct---------gtttgtcat------ttgtagAAATCCGCATTGCTAGAATCTTCAACACATATGGTCCTCGAATGAACATCGATGATGGGCGTGTTGTGAGCAACTTCATTGCTCAAGCACTCCG
       |   | ||  ||||   |   ||  | | |   |||      ||||| |   |||||  || |  | || | |||    |          ||| ||||       |||||||||||| ||||| || || || ||||| ||||| ||| | |||||||| |||||||| |||||||| ||||||||||||||||| ||  | ||
gtaacacttcatctttcacttaaacttcaatattagtagctcatagccctctttgttatgtgataactctgggcttatgatttttttcttaacggtatttatcatctatgtctgtagAAATCCGGATTGCCAGGATTTTTAACACCTATGGGCCTAGGATGAACATTGATGATGGCCGTGTTGTTAGCAACTTCATTGCTCAGGCTGTGCG

upper sequence: AT5G59290.2 (Arabidopsis thaliana), 3'ss of exon 7
lower sequence: GRMZM2G044027_T02 (Zea mays), 3'ss of exon 8
gtcagttttctacttc--cctaaact----cactgcatcacttttttctttatccagtgattcctttaagattctcattggcc--------tgtttgtcattt------gtagAAATCCGCATTGCTAGAATCTTCAACACATATGGTCCTCGAATGAACATCGATGATGGGCGTGTTGTGAGCAACTTCATTGCTCAAGCACTCCG
|| |   |||  |||   | ||||||     | |   |||      |||||||   |||||  || || | || | ||| | |        | ||| | || |      ||||||||||| ||||| || || |||||||| ||||| ||  | |||||||| || ||||| |||||||| ||||||||||||||||| ||  | ||
gtaatacttcatcttgcacttaaactgtaatattagctcatagccctctttattgtgtgataactctaggcttatgatttgtcctcagcaatatttataatctatgtctgtagAAATCCGAATTGCCAGGATTTTCAACACCTATGGACCAAGGATGAACATTGACGATGGCCGTGTTGTTAGCAACTTCATTGCTCAGGCTGTGCG

upper sequence: AT5G59290.2 (Arabidopsis thaliana), 3'ss of exon 7
lower sequence: GRMZM2G382038_T01 (Zea mays), 3'ss of exon 9
------gtcagttttctactt---ccctaaactcactg---catcacttttttctttatccagtgattcc---tttaagattctca--ttggcc-tgtttgtcatt------tgtagAAATCCGCATTGCTAGAATCTTCAACACATATGGTCCTC-GAATGAACATCGATGATGGGCGTGTTGTGAGCAACTTCATTGCTCAAGCACTCCG
       |   | ||  ||||   |   ||  | | |    |||  |  | ||  ||||    | | ||     ||| |||| |    ||| |  | ||| ||||       |||||||||||| ||||| || || || ||||| ||||| |||  | |||||||| |||||||| |||||||| ||||||||||||||||| ||  | ||
gtaacacttcatctttcacttaaacttcaatattagtagctcatagccctctttgttatgtgataactctgggcttatgatttttttcttgacagtatttatcatctatgtctgtagAAATCCGGATTGCCAGGATTTTTAACACCTATGGGCCTAAGGATGAACATTGATGATGGCCGTGTTGTTAGCAACTTCATTGCTCAGGCTGTGCG

upper sequence: AT5G59290.2 (Arabidopsis thaliana), 3'ss of exon 7
lower sequence: GLYMA13G40960.1 (Glycine max), 3'ss of exon 9
------gtcagttttctacttccc-taaactcactgcatcacttttttctttatccagt---gattcctttaagattctca-----ttggcctgtttgt----cattt----gtagAAATCCGCATTGCTAGAATCTTCAACACATATGGTCCTCGAATGAACATCGATGATGGGCGTGTTGTGAGCAACTTCATTGCTCAAGCACTCCG
          || ||||  | |   |||  ||    |||    |||     ||||||||   ||||  | |  | |||| |     |||   ||||| |    | |||     ||||||| |||||||| |||||||| ||||||||||| || || ||||| || ||||||||||||||||| ||||||||||||||||||||||| ||
gtaatttcttgtcttcttttccttgtaatttcttctcattttgtttacacatatccagtagagatttatctttgtttcttaactccttgtggtgtttatgtctcctttcaacatagAAATACGCATTGCAAGAATCTTTAACACATATGGACCACGCATGAATATTGATGATGGGCGTGTTGTTAGCAACTTCATTGCTCAAGCACTTCG

upper sequence: AT5G59290.2 (Arabidopsis thaliana), 3'ss of exon 7
lower sequence: GLYMA15G04500.2 (Glycine max), 3'ss of exon 9
---------------------------gtcagttttctacttccctaaactcactgcatcact--tttttctttatccagtgattcctttaagattctcattggcctgtttgtcatttgtagAAATCCGCATTGCTAGAATCTTCAACACATATGGTCCTCGAATGAACATCGATGATGGGCGTGTTGTGAGCAACTTCATTGCTCAAGCACTCCG
                            |   || ||   ||   |||      | ||  |    ||||||||| |    | | |||||  || |  | ||    |  ||   |||    |||||| |||||||| |||||||| ||||||||||| || || ||||| || ||||||||||||||||| ||||||||||||||||||||||| ||
gtaatttattgtctttttttccttataatttcttctcgttttgtttaaggcatatccaatagagatttttctttgttttttaactcctt-gaggtgtttatatatcctttcaacat----agAAATACGCATTGCAAGAATCTTTAACACATATGGACCACGCATGAATATTGATGATGGGCGTGTTGTCAGCAACTTCATTGCTCAAGCACTGCG

upper sequence: AT5G59290.2 (Arabidopsis thaliana), 3'ss of exon 7
lower sequence: GLYMA11G15010.1 (Glycine max), 3'ss of exon 8
----------------------------------------------gtcagttttctactt---ccctaaactcactgcatcacttttttctt-tatccagtgattcctttaagattctcattggcctgtttgtcatttgtagAAATCCGCATTGCTAGAATCTTCAACACATATGGTCCTCGAATGAACATCGATGATGGGCGTGTTGTGAGCAACTTCATTGCTCAAGCACTCCG
                                               |   ||     |     |  || ||    ||||   || ||  ||  ||  || | | ||  |   ||| || |||  | | ||| ||  |   |||||| |||||||| |||||||||||||||||||| || || ||||| || ||||||||||||||||| || |||||||||||||||||| | ||
gtaattccttatctttattttttccttttctccttggcaacatctcattgattgagggcacaaacagtacacgttttgcactgctgttaactaataagcaataactcaat-gtgatgcttattttcatatttttctctc--agAAATACGCATTGCGAGAATCTTCAACACATATGGACCACGCATGAATATTGATGATGGGCGTGTTGTCAGTAACTTCATTGCTCAAGCAATTCG

upper sequence: AT5G59290.2 (Arabidopsis thaliana), 3'ss of exon 7
lower sequence: GLYMA12G06980.3 (Glycine max), 3'ss of exon 8
-----------------------gtcagttttctacttccctaaactca--ctgcatcactttt---------ttctttatccagtgattcctt--taagattctcattggcctgtttgtcatttgtagAAATCCGCATTGCTAGAATCTTCAACACATATGGTCCTCGAATGAACATCGATGATGGGCGTGTTGTGAGCAACTTCATTGCTCAAGCACTCCG
                       | ||   |   | |        | ||  | | |  | ||||         ||   ||   ||  ||  ||   |  ||| || |||  | | ||| |  | |  |||||| |||||||| |||||||| ||||||||||| || || ||||| || ||||||||||||||||| || |||||||| ||||||||| | ||
gtaattccttatcttttctccttggcaacatctcattgttgagggcacaaacagtagaagttttgcactgccgttaactaataagcaataactcaatgtgatgcttattttcattttttttctct-cagAAATACGCATTGCGAGAATCTTTAACACATATGGACCACGCATGAATATTGATGATGGGCGTGTTGTCAGTAACTTCATCGCTCAAGCAATTCG

upper sequence: AT5G59290.2 (Arabidopsis thaliana), 3'ss of exon 7
lower sequence: GLYMA12G06990.1 (Glycine max), 3'ss of exon 8
------gtcagttttctacttccctaaactcactgcatcacttttttctttatccagtga-----ttcctttaagatt---ctcattggcctgtttgtcatt---tgtagAAATCCGCATTGCTAGAATCTTCAACACATATGGTCCTCGAATGAACATCGATGATGGGCGTGTTGTGAGCAACTTCATTGCTCAAGCACTCCG
           | ||||  || | | |      |   |  ||  ||  | || |  ||       || || |   |||   || | |   || | | || ||     ||||||| ||  |||| |||||||| ||||||||||| || || ||||| || |||||||| |||||||| ||||||||||||||||||||| | ||
gtaatttcttctcttcttttttcttcatagttgtctgttgctccttgttataactggtagaaatttttctctgtaatttaactgagttttctatatttctttcaacatagAAATACGTGTTGCAAGAATCTTTAACACATATGGGCCGCGCATGAATATTGATGATGGACGTGTTGTCAGCAACTTCATTGCTCAAGCAATTCG

upper sequence: AT5G59290.2 (Arabidopsis thaliana), 3'ss of exon 7
lower sequence: GLYMA11G15020.1 (Glycine max), 3'ss of exon 8
---------------------------------gtcagttttc--tacttccctaaactcactgcatcacttttttctttatccagtga-----ttcctttaagattctcattggcctgtttgtcattt-------gtagAAATCCGCATTGCTAGAATCTTCAACACATATGGTCCTCGAATGAACATCGATGATGGGCGTGTTGTGAGCAACTTCATTGCTCAAGCACTCCG
                                 ||   || |   |  || | | |      |   |   |  ||  | || |  ||       || ||||   |   | | ||   | ||| |  ||         ||||||| ||  |||| |||||||| ||||||||||| || || ||||| || |||||||| |||||||| ||||||||||||||||||||  | ||
gtaatttctgctcttcttttcttcatagttgttgttgattgttgttgttttcttcatagttgtcttttgttccttgttatagctggtagaaaattttcttttgtaagttaactgagttttttatatttctttcaacatagAAATACGTGTTGCAAGAATCTTTAACACATATGGGCCACGCATGAATATTGATGATGGACGTGTTGTCAGCAACTTCATTGCTCAAGCGATTCG

upper sequence: AT5G59290.2 (Arabidopsis thaliana), 3'ss of exon 7
lower sequence: Vv06s0004g04390.t01 (Vitis vinifera), 3'ss of exon 8
gtcagttttctacttccctaaactcactgcatcacttttttctttatccagtgattcctttaagattctcattggcctgtttgtcatttg--tagAAATCCGCATTGCTAGAATCTTCAACACATATGGTCCTCGAATGAACATCGATGATGGGCGTGTTGTGAGCAACTTCATTGCTCAAGCACTCCG
|| | |||| |  ||   |    | | | |   ||    |||  |    |   | |  ||||| ||     |||   | ||| |  ||||   |||||| |||||||||||||| |||||||||||||| || || ||||| || |||||||| |||||||| ||||| ||||| ||||||||||| ||
gtaacttttgtgtttttttt--tttaatcctgaacaaacttcaatgaatatgaagt--tttaatatgtatgttg-tttctttatattttggacagAAATACGCATTGCTAGAATTTTCAACACATATGGGCCCCGCATGAATATTGATGATGGACGTGTTGTCAGCAATTTCATAGCTCAAGCACTTCG

upper sequence: AT5G59290.2 (Arabidopsis thaliana), 3'ss of exon 7
lower sequence: PP1S189_118V6.1 (Physcomitrella patens), 3'ss of exon 8
-----gtcagttttctacttccctaaactcact-gcatcacttttttctttatccagtgattcct--ttaagattctcattggcctgtttgtcatttgtagAAATCCGCATTGCTAGAATCTTCAACACATATGGTCCTCGAATGAACATCGATGATGGGCGTGTTGTGAGCAACTTCATTGCTCAAGCACTCCG
       |  |    |    | || |    | | ||||||||   |||         ||  || |  | |  ||      |   || || ||  |  | |||||||||  | ||  |||| || ||||| ||||| ||||| ||||| ||||| |||||||| || || ||||| || |||||||||||| |  |
aaggatgcgatgaaatgtagctctgagtgtagtagcatcactgaattccaagaagcttggatcttggtcataatctctgctttgctattcgtggtg-gcagAAATCCGTGTAGCACGAATTTTTAACACCTATGGGCCTCGCATGAATATCGACGATGGGCGAGTAGTCAGCAATTTTATTGCTCAAGCATTAAG

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|125313379|gb|EL327464.1|EL327464
EST:     CGGGTAGCCGAAACCTTGATGTTTGACTACCACAGACAACATGGCATTG                         AAATCCGCATTGCTAGAATCTTCAACACATATGGTCCTCGAATGAACATC
genomic: CGGGTAGCCGAAACCTTGATGTTTGACTACCACAGACAACATGGCATTGgtcagttttc ... tcatttgtagAAATCCGCATTGCTAGAATCTTCAACACATATGGTCCTCGAATGAACATC






















 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

tttctttatccagtgattcctttaagattctcattggcctgtttgtcatttgtagAAATCCGCATTGCTAGAATCTTCAACACATATGGTCCTCGAATGAACATCGATGATGGGCGTGTTGTGAGCAACTTCATTGCTCAAGCACTCCG
                    tttaagatt  TA-rich tract