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'   

Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtaagtaaagaataatcacaatcttgttttgctaatgactggtttaaccacctgaatgtttaatgatgtttatgaaccagGATCTTGGTGGATCGCTAGGGAGAGACGCGGCTACTGGAAGAGGAGTGATGTTTGGTACCGAAGCTTTGCTTAACGAGCACGGAAAGACCATATCAGGGC

Basic information

species Arabidopsis thaliana
transcript AT5G18170.1
intron # 4
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: AT5G18170.1 (Arabidopsis thaliana), 3'ss of exon 4
lower sequence: GRMZM2G178415_T02 (Zea mays), 3'ss of exon 5
-------------------gtaagtaaagaataatcacaatcttgttttg---ctaatgactggtttaaccacctgaatgtttaatgatgtttatgaaccagGATCTTGGTGGATCGCTAGGGAGAGACGCGGCTACTGGAAGAGGAGTGATGTTTGGTACCGAAGCTTTGCTTAACGAGCACGGAAAGACCATATCAGGGC
                    |  |  |  || ||  |  || | | | |    || |||      |     ||||    |||  ||  || | |  |  ||||| || || |||||  | || |||||||| ||||||||||| |||||  |||||| ||| ||||||||||||   ||||| || ||   |||  |||| |
tttgtttacgaggcataaatttggatagcaacaaaaaggatttggctctcagtctcatgggattctggcttacctcctcgtt--atcttgctcaatacacagGACCTCGGAGGATCATTGGGAAGAGACGCCGCTACTGGAAGGGGAGTTCTGTTTGCTACTGAAGCTTTGCTTGCAGAGCATGGCAAAGGCATTGCAGGCC

upper sequence: AT5G18170.1 (Arabidopsis thaliana), 3'ss of exon 4
lower sequence: GLYMA16G04560.2 (Glycine max), 3'ss of exon 5
gtaagtaaagaataatcacaatcttgtt-ttgctaatgactggtttaaccacctg---aatgtttaatgatgtttatg--------aaccagGATCTTGGTGGATCGCTAGGGAGAGACGCGGCTACTGGAAGAGGAGTGATGTTTGGTACCGAAGCTTTGCTTAACGAGCACGGAAAGACCATATCAGGGC
||||||||    |  |  || |    |      | | |     |  || ||  ||   ||| | | ||     |||||        ||| |||||||||||||||| || || |||||||||||||| ||| |||||||  | ||||  || || ||||||||||| ||| | || ||||   |||| || |
gtaagtaattgtttgtttcatttcaatggccattgaagtgaaatcaaatcatatgcttaatatatcattgcccttatgttttttcaaactagGATCTTGGTGGATCTCTCGGTAGAGACGCGGCTACAGGACGAGGAGTCCTCTTTGCAACAGAGGCTTTGCTTAATGAGTATGGGAAGAGTGTATCTGGAC

upper sequence: AT5G18170.1 (Arabidopsis thaliana), 3'ss of exon 4
lower sequence: GLYMA19G28770.1 (Glycine max), 3'ss of exon 4
gtaagtaaagaataatcacaatcttgttttgctaatgactg-----gtttaaccacctga-atgtttaatg--------------atgtttat--gaaccagGATCTTGGTGGATCGCTAGGGAGAGACGCGGCTACTGGAAGAGGAGTGATGTTTGGTACCGAAGCTTTGCTTAACGAGCACGGAAAGACCATATCAGGGC
|| |||||    |  |  |  || | |  |   |||| |       ||  || ||  | | ||| || ||               |||||| |   ||| |||||||||||||||| ||||| |||||||||||||| ||| | |||||  | ||||  || || ||||||||||| ||| | || ||||   |||| || |
gtgagtaattgtttgtttctgtcatttcatttcaatggccattgaagtgaaatcaaatcatatgcttcatacactattgcccctcatgttttttcaaactagGATCTTGGTGGATCTCTAGGTAGAGACGCGGCTACAGGACGGGGAGTCCTCTTTGCAACAGAGGCTTTGCTTAATGAGTATGGGAAGAGTGTATCTGGAC

upper sequence: AT5G18170.1 (Arabidopsis thaliana), 3'ss of exon 4
lower sequence: GLYMA11G16320.1 (Glycine max), 3'ss of exon 6
gtaagtaaagaataatc---acaatcttgttttgctaatgactg--gtttaaccacctga-atgtttaatg--------------atgtttat--gaaccagGATCTTGGTGGATCGCTAGGGAGAGACGCGGCTACTGGAAGAGGAGTGATGTTTGGTACCGAAGCTTTGCTTAACGAGCACGGAAAGACCATATCAGGGC
|| |||||    |  |     | || |  |||   |    | ||  ||  || ||  | | |||||| ||               |||||| |   ||| |||||||||||||||| ||||| ||||||| |||||| ||| | |||||  | ||||  || || ||||||||||| ||| | |||||||   |||| || |
gtgagtaattgtttgtttctgccatttcatttcaatggccattgaagtgaaatcaaatcatatgtttcatacactattgcccttcatgttttttcaaactagGATCTTGGTGGATCTCTAGGTAGAGACGTGGCTACGGGATGGGGAGTCCTCTTTGCAACAGAGGCTTTGCTTAATGAGTATGGAAAGAGTGTATCTGGAC

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|163967815|gb|ES149404.1|ES149404
EST:     ACTCTAAGTTTCATGGATACTCGCCTGCAGTTGTGACTGGAAAACCCATT                         GATCTTGGTGGATCGCTAGGGAGAGAC
genomic: ACTCTAAGTTTCATGGATACTCGCCTGCAGTTGTGACTGGAAAACCCATTgtaagtaaag ... tatgaaccagGATCTTGGTGGATCGCTAGGGAGAGAC
EST: gi|116386886|gb|EG429478.1|EG429478
EST:     ACTCTAAGTTTCATGGATACTCGCCTGCAGTTGTGACTGGAAAACCCATT                         GATCTTGGTGGATCGCTAGGGAGAGACGCGGCTACTGGAAGAGGAGTGATG
genomic: ACTCTAAGTTTCATGGATACTCGCCTGCAGTTGTGACTGGAAAACCCATTgtaagtaaag ... tatgaaccagGATCTTGGTGGATCGCTAGGGAGAGACGCGGCTACTGGAAGAGGAGTGATG
EST: gi|125086090|gb|EL145686.1|EL145686
EST:     ACTCTAAGTTTCATGGATACTCGCCTGCAGTTGTGACTGGAAAACCCATT                         GATCTTGGTGGATCGCTAGGG
genomic: ACTCTAAGTTTCATGGATACTCGCCTGCAGTTGTGACTGGAAAACCCATTgtaagtaaag ... tatgaaccagGATCTTGGTGGATCGCTAGGG


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

gttttgctaatgactggtttaaccacctgaatgtttaatgatgtttatgaaccagGATCTTGGTGGATCGCTAGGGAGAGACGCGGCTACTGGAAGAGGAGTGATGTTTGGTACCGAAGCTTTGCTTAACGAGCACGGAAAGACCATATCAGGGC
                                 tttaatgatgtttat  TA-rich tract