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'   

Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

...cgtgtatagtgtttgtgtagtttgtttactcatgtggattttttcgaagtttggaactaaacggaaccttcctgtgaatgaactctaatggtgataccagGTGTTCGAGAAGCTTGGGCCAAGTTTGTTTGACTTTCTAAAGAGAAATAAATACTCCGCATTTCCTCTGGCCCTTGTTCGGGATTTTGGATGCCAGCTTT

Basic information

species Arabidopsis thaliana
transcript AT4G32660.2
intron # 5
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: AT4G32660.1 (Arabidopsis thaliana), 3'ss of exon 5
lower sequence: LOC_Os01g40840.2 (Oryza sativa), 3'ss of exon 4
cgtgtatagtgtttgtgtagtttgtttactcatgtggatttttt--cgaagtttggaactaaacggaaccttcctgtgaatgaactctaatggtgataccagGTGTTCGAGAAGCTTGGGCCAAGTTTGTTTGACTTTCTAAAGAGAAATAAATACTCCGCATTTCCTCTGGCCCTTGTTCGGGATTTTGGATGCCAGCTTT
| |||| ||| ||| ||| ||||| | ||| | || ||| || || || | |||| | ||||| | ||||| || ||||||||||||||||| |||| ||| |||||||||||||||| |||| | || ||| ||| ||||| ||||| |||||| | || || |
tgcttataaaacagttgtcgttc-tttgctcataaaggtttgccgatatggaaacaaatcaaagataatttttct-tcaatggatatcgatggttttgtcagGTTTTTGAGAAGCTTGGGCCAAGCTTGTATGATTTTCTAAAGAGAAATAGATACCAACCTTTCCCTGTGGAACTTGTGCGGGAGTTTGGACGGCAACTGT

upper sequence: AT4G32660.1 (Arabidopsis thaliana), 3'ss of exon 5
lower sequence: GRMZM2G366935_T07 (Zea mays), 3'ss of exon 4
cgtgtatagtgt--ttgtgtagtttgtttactcatgtggattttttcgaa--gtttggaactaaacggaaccttcctgtgaatgaactctaatggtgataccagGTGTTCGAGAAGCTTGGGCCAAGTTTGTTTGACTTTCTAAAGAGAAATAAATACTCCGCATTTCCTCTGGCCCTTGTTCGGGATTTTGGATGCCAGCTTT
| | ||| | | | ||| || ||||||| | || || | || || | || | ||| | | |||| | ||| | | ||||| || ||||||||||||||||| |||| ||| |||||||||||||||| |||| | || ||| ||| ||||| ||||| |||||| | || || |
--ttgacagtaaaatcattttgttc-ttcactcatgaaggttccctcatatggtcccaaatttaaaatatactttat-tcaatggatatcgatgattttgtcagGTTTTTGAGAAGCTTGGGCCAAGCTTGTATGATTTTCTAAAGAGAAATAGATACCGACCTTTCCCTGTGGAACTTGTGCGGGAGTTTGGACGGCAACTGT

upper sequence: AT4G32660.1 (Arabidopsis thaliana), 3'ss of exon 5
lower sequence: GRMZM2G094039_T06 (Zea mays), 3'ss of exon 4
cgtgtatagtgtttgtgtagtttgtttactcatgtggattttttcgaa--gtttggaactaaacggaaccttcctgtgaatgaactctaatggtgataccagGTGTTCGAGAAGCTTGGGCCAAGTTTGTTTGACTTTCTAAAGAGAAATAAATACTCCGCATTTCCTCTGGCCCTTGTTCGGGATTTTGGATGCCAGCTTT
| |||| | | | | ||| || ||| || | || || | || || |||| | ||| | | |||| | |||| | | ||||| || ||||||||||||||||| |||| ||| |||||||||||||||| |||| | || ||| ||| ||||| ||||| |||||| | || || |
cctgtagtatagtctttttgttc-ttcgctcgtgaaggttccctcatatggtcacaaattaaaaatattctttat-tcaatggatatcaatgattttgtcagGTTTTTGAGAAGCTTGGGCCAAGCTTGTATGATTTTCTAAAGAGAAATAGATACCAACCTTTCCCTGTGGAACTTGTGCGGGAGTTTGGACGGCAACTGT

upper sequence: AT4G32660.1 (Arabidopsis thaliana), 3'ss of exon 5
lower sequence: GLYMA06G08480.2 (Glycine max), 3'ss of exon 4
cgtgtatagtgtttgtgtagtttgtttactcatgtggatttttt---cgaagtttggaactaaac-ggaaccttcctgtgaatgaactctaatggtgataccagGTGTTCGAGAAGCTTGGGCCAAGTTTGTTTGACTTTCTAAAGAGAAATAAATACTCCGCATTTCCTCTGGCCCTTGTTCGGGATTTTGGATGCCAGCTTT
||||||| | | | | | | ||||||| |||| | | | || |||||| | | ||| ||||| | |||| | | |||||||| || ||||| || ||||||||||| ||||| || ||||| |||||||||||||||||||||| | |||| ||| ||| ||||||||||| |||||| | |||||||
----tatagtggattgtttttatatatgtccatgtgggttttattcatggatttgataactaagcagaaacattcctttcaatgcattttaatggtgttatcagGTCTTTGAGAAGCTTGGACCAAGCTTATTTGATTTTCTAAAGAGAAATAAATACTGCCCATTCCCTGTGGATCTTGTTCGGGAATTTGGACGTCAGCTTT

upper sequence: AT4G32660.1 (Arabidopsis thaliana), 3'ss of exon 5
lower sequence: Vv04s0008g04220.t01 (Vitis vinifera), 3'ss of exon 5
cgtgtatagtgtttgtgtagtttgtttactcatgtggattttttc---gaagtttggaactaaac---ggaaccttcctgtgaatgaactctaatggtgataccagGTGTTCGAGAAGCTTGGGCCAAGTTTGTTTGACTTTCTAAAGAGAAATAAATACTCCGCATTTCCTCTGGCCCTTGTTCGGGATTTTGGATGCCAGCTTT
| | | || || | || ||| | |||||| || | | | | |||| ||| | || |||||| |||||| ||| |||||||| ||||||||||| ||||||||||| |||||||| ||||| |||||||||||||||||||||| | |||||||| ||| ||||||||||| |||||| | |||||||
----tgtgatagtt-tg-aattaatttctccctgtggacttcattcataagactggaaacttaacattgaaatcttcctttgaatgcactttaatggtgttaccagGTGTTTGAGAAGCTTGGACCAAGTTTATTTGATTTTCTAAAGAGAAATAAATACTGCCCATTTCCTGTGGATCTTGTTCGGGAATTTGGACGTCAGCTTT

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|163990545|gb|ES114651.1|ES114651
EST:     CTGTGTACAGATGAAGAACTGGTTTGATTACCGAAATCATATTTGCATT                         GTGTTCGAGAAGCTTGGGCCAAGTTTGTT
genomic: CTGTGTACAGATGAAGAACTGGTTTGATTACCGAAATCATATTTGCATTgtaagtatcc ... gtgataccagGTGTTCGAGAAGCTTGGGCCAAGTTTGTT
EST: gi|116384701|gb|EG427293.1|EG427293
EST:     CTGTGTACAGATGAAGAACTGGTTTGATTACCGAAATCATATTTGCATT                         GTGTTCGAGAAGCTTGGGCCAAGTTTGTTTGACTTTCTAAAGAGAAATAAA
genomic: CTGTGTACAGATGAAGAACTGGTTTGATTACCGAAATCATATTTGCATTgtaagtatcc ... gtgataccagGTGTTCGAGAAGCTTGGGCCAAGTTTGTTTGACTTTCTAAAGAGAAATAAA


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

gaagtttggaactaaacggaaccttcctgtgaatgaactctaatggtgataccagGTGTTCGAGAAGCTTGGGCCAAGTTTGTTTGACTTTCTAAAGAGAAATAAATACTCCGCATTTCCTCTGGCCCTTGTTCGGGATTTTGGATGCCAGCTTT
         aactaaa  TA-rich tract