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'   

Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtctgtatttttcttaactagtacataactatgatagctgaatcatttcagttctaactggttctaaattcatgtttagACTATGGGATCTAGGTCAGCAGCGATGTCTTCATACCTATGCGGTGCATACAGATTCTGTTTGGGCGCTTGCATGCAACCCATCATTTAGTCATGTTTAT

Basic information

species Arabidopsis thaliana
transcript AT3G05090.1
intron # 8
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: AT3G05090.1 (Arabidopsis thaliana), 3'ss of exon 8
lower sequence: LOC_Os12g06810.2 (Oryza sativa), 3'ss of exon 8
-----------------------------------------------gtctgtatttt------tcttaactagtaca-taactatgatagc-tgaatcatttcagttctaactggttctaaattcatgtttagACTATGGGATCTAGGTCAGCAGCGATGTCTTCATACCTATGCGGTGCATACAGATTCTGTTTGGGCGCTTGCATGCAACCCATCATTTAGTCATGTTTAT
                                               || || |   |      |||  |||   ||| | |  ||||   | || | ||| |    |  |  || ||||  |||    |  ||| |||||||||| || |||||||||||| ||||| | ||||| |||||||| ||||| || |||||||||||| |||  || || |||||||||||||||
gtaattcacagttctagtcttgcccactccagatcttgtgtatgtgtgtatgcacactaaaatatctgtactttcacactgatcatgaagtcatgtaacatcttgtctgcacatgtttctggattt---tgcagATTATGGGATCTGGGACAGCAGCGATGTATTCATTCTTATGCTGTGCATACTGATTCAGTCTGGGCGCTTGCAAGCACTCCTTCGTTTAGTCATGTTTAT

upper sequence: AT3G05090.1 (Arabidopsis thaliana), 3'ss of exon 8
lower sequence: GRMZM2G167999_T02 (Zea mays), 3'ss of exon 8
----------------------------gtctgtatttttcttaactagtacata-actatgatagctgaatcatttcagttctaactggttctaaattcatgtttagACTATGGGATCTAGGTCAGCAGCGATGTCTTCATACCTATGCGGTGCATACAGATTCTGTTTGGGCGCTTGCATGCAACCCATCATTTAGTCATGTTTAT
                             |||   | | || |   ||| | | |  || || ||  |    |||   || |   ||   || | | ||  | |  ||||||||||||||||| |||||||| ||| ||||| | ||||| |||||||| |||||||||||||| |||||| |||  ||  ||||| ||||||| || 
gtaaacacacagctctaacatctcaaccatctccctctctcatg-ttagcataaatgctgtggtaagtttgacatcatagat---acatatttttatttactttgcagACTATGGGATCTAGGACAGCAGCGTTGTGTTCATTCTTATGCTGTGCATACTGATTCTGTTTGGGCACTTGCAAGCACTCCTGCATTTGGTCATGTCTAC

upper sequence: AT3G05090.1 (Arabidopsis thaliana), 3'ss of exon 8
lower sequence: GLYMA03G40360.1 (Glycine max), 3'ss of exon 8
gtctgtatttttcttaactagtac-ataactatga-tagctgaatcatttcagttctaactggttctaaattcatgttt------agACTATGGGATCTAGGTCAGCAGCGATGTCTTCATACCTATGCGGTGCATACAGATTCTGTTTGGGCGCTTGCATGCAACCCATCATTTAGTCATGTTTAT
    ||| |   |  |  | |    || || ||   |   ||  |  |||    | | |||  |  |   | ||| |||      || || |||||| ||||||||||| ||||| | ||| | ||||| || |||||||||||||||||||| |||||  ||| |||| |||||||||||||||||
----gtaatgcacacatatggagttattaccatttctgtttgttttgttttgtgtttgactaataatctgtccatctttcctcatagGCTTTGGGATATAGGTCAGCAGAGATGTGTGCATTCTTATGCAGTTCATACAGATTCTGTTTGGGCACTTGCCAGCACCCCAACATTTAGTCATGTTTAT

upper sequence: AT3G05090.1 (Arabidopsis thaliana), 3'ss of exon 8
lower sequence: GLYMA19G43070.1 (Glycine max), 3'ss of exon 8
gtc-tgtatttttcttaactagtacataactatgatagctgaatcatttcagtt--ctaactggttctaaat-tcatgtttagACTATGGGATCTAGGTCAGCAGCGATGTCTTCATACCTATGCGGTGCATACAGATTCTGTTTGGGCGCTTGCATGCAACCCATCATTTAGTCATGTTTAT
||  || |    | |  | |  ||   |  | |  | | |   |  ||   |||  ||||     | |   | |    | ||| || |||||| ||||||||||| ||||| | ||| | ||||| || |||||||||||||||||||| |||||  ||| |||| |||||||||||||||||
gtaatgcacacatatggagttataagcatttctatttgttttgtttttgtggttgactaataatctgtcggtgtttcctctagGCTTTGGGATATAGGTCAGCAGAGATGTGTGCATTCTTATGCAGTTCATACAGATTCTGTTTGGGCACTTGCCAGCACCCCAACATTTAGTCATGTTTAT

upper sequence: AT3G05090.1 (Arabidopsis thaliana), 3'ss of exon 8
lower sequence: GLYMA03G40440.3 (Glycine max), 3'ss of exon 8
-----gtctgtatttttcttaactagtacataactatgata-gctgaatcatttcagtt--ctaactggttctaaat--tcatgtttagACTATGGGATCTAGGTCAGCAGCGATGTCTTCATACCTATGCGGTGCATACAGATTCTGTTTGGGCGCTTGCATGCAACCCATCATTTAGTCATGTTTAT
     |      | |    | |  || |  |   | || |  | |   |  ||   |||  |||| |   | || ||  | | | |||| || |||||| ||||||||||| ||||| | ||| | ||||| || |||||||||||||||||||| || ||  ||| |||| |||||||||||||||||
gtaatgcacacgtatggagttataagcatttctatttgttttgttttgtttttgtggttgactaattatctgtacatctttacgcttagGCTTTGGGATATAGGTCAGCAGAGATGTGTGCATTCTTATGCAGTTCATACAGATTCTGTTTGGGCACTCGCCAGCACCCCAGCATTTAGTCATGTTTAT

upper sequence: AT3G05090.1 (Arabidopsis thaliana), 3'ss of exon 8
lower sequence: GLYMA19G42990.1 (Glycine max), 3'ss of exon 8
gtc-tgtatttttcttaactagtacataactatgatagc--tgaatcatttcagttctaactggt------tctaaattcatgtttagACTATGGGATCTAGGTCAGCAGCGATGTCTTCATACCTATGCGGTGCATACAGATTCTGTTTGGGCGCTTGCATGCAACCCATCATTTAGTCATGTTTAT
||  || |    | |  | |  |    |  | || | |   ||  |  |||    | | |||  |      || || ||      ||| || |||||| ||||||||||  ||||| | ||| | ||||| || |||||||||||||||||||| |||||  ||| |||| |||||||||||||||||
gtaatgcacacatatggagttattaccatttctgtttgttttgttttgttttgtgtttgactaataatctgtccaactttcctcatagGCTTTGGGATATAGGTCAGCAAAGATGTGTGCATTCTTATGCAGTTCATACAGATTCTGTTTGGGCACTTGCCAGCACCCCAACATTTAGTCATGTTTAT

upper sequence: AT3G05090.1 (Arabidopsis thaliana), 3'ss of exon 8
lower sequence: GLYMA10G30050.1 (Glycine max), 3'ss of exon 7
gtctgtatttttcttaactagtacataactatgatagctgaatcatttcagttctaactggttcta--aattcatgtt-tagACTATGGGATCTAGGTCAGCAGCGATGTCTTCATACCTATGCGGTGCATACAGATTCTGTTTGGGCGCTTGCATGCAACCCATCATTTAGTCATGTTTAT
    ||| |     ||  | ||   | |  || ||  ||   |  ||| |    | |||  |   |  |  |    |  ||| || |||||||| |||||||| || ||| | ||| | ||||| || |||||||||||| ||||||| |||||| |||   || |||||||||||||||||
----gtaatgcgtgtatatggtt--ttataataatttcttt-ttgttttatggtttactaatctcaccatctttcatcatagGCTTTGGGATCTTGGTCAGCAACGCTGTGTGCATTCTTATGCAGTTCATACAGATTCTATTTGGGCTCTTGCAAGCACTTCAACATTTAGTCATGTTTAT

upper sequence: AT3G05090.1 (Arabidopsis thaliana), 3'ss of exon 8
lower sequence: Vv14s0030g01350.t01 (Vitis vinifera), 3'ss of exon 8
--------------gtctgtatt-tttcttaactagtacataactatgatagctgaatcatttcagttct-aactggt---tctaaattcatgttt---agACTATGGGATCTAGGTCAGCAGCGATGTCTTCATACCTATGCGGTGCATACAGATTCTGTTTGGGCGCTTGCATGCAACCCATCATTTAGTCATGTTTAT
               | ||| |  ||| ||  ||  ||  |||   |  ||| ||  |||| |   |  | |||  ||   |||   ||||  |||   || ||||||||||| ||||||||| ||||  | ||| ||||||| ||||||||||||||||| ||||| |||||| ||| |||| ||||||| |||||||||
atcacgcattcaatatatgtttcgtttatttccttataattaatccttttag-tgcttcatgtggttgatcaacctgtacatctctcttcacatttcacagGCTATGGGATCTTGGTCAGCAGAGATGCGTGCATTCCTATGCCGTGCATACAGATTCTGTCTGGGCACTTGCAAGCACCCCAACATTTAGCCATGTTTAT

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|125126418|gb|EL171615.1|EL171615
EST:     AACTGGCAGGTTTTGCTTGTCTGGGTCGTCTGATTCTATGATAAG                         ACTATGGGATCTAGGTCAGCAGCGATGTCTTCATACCTATGCGGTG
genomic: AACTGGCAGGTTTTGCTTGTCTGGGTCGTCTGATTCTATGATAAGgtctgtattt ... tcatgtttagACTATGGGATCTAGGTCAGCAGCGATGTCTTCATACCTATGCGGTG






















 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

ataactatgatagctgaatcatttcagttctaactggttctaaattcatgtttagACTATGGGATCTAGGTCAGCAGCGATGTCTTCATACCTATGCGGTGCATACAGATTCTGTTTGGGCGCTTGCATGCAACCCATCATTTAGTCATGTTTAT
                                        taaattcatgttta  TA-rich tract