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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

...aatacatttgcatgttgaaaaggttttgtttaatgtaggtcaaggtgacacttgaccaatggactccttgatcgcttgatgttgatgttgacattttcagGTATTGGGGGTTTTATGTGAAGCTCAGTATTTCCAAAATGTGATGCGTGTTGGTTACCGGCTTAGGTCTGCACTG

Basic information

species Arabidopsis thaliana
transcript AT1G30400.2
intron # 9
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: AT1G30400.1 (Arabidopsis thaliana), 3'ss of exon 10
lower sequence: GLYMA13G29180.1 (Glycine max), 3'ss of exon 9
aatacatttgcatgttgaaaaggttttgtttaatgtaggtcaaggtgacacttgaccaatggactccttgatcgcttgatg------ttgatgttgacattttcagGTATTGGGGGTTTTATGTGAAGCTCAGTATTTCCAAAATGTGATGCGTGTTGGTTACCGGCTTAGGTCTGCACTG
      |||| |  ||     |   ||| |  |  ||  |  | || |    | |||  || |    ||||    || |         |||  |||   ||   |||| || ||||| |||||||||||||| ||||| || ||||| |||||||||||||||||| | || ||  || ||
----tttttgtaaattaggctg--cttgatggaattacatgcaagtaatttataacctttgcaagttttgacttattaagagcctatctgaatttgtttttgatagGTCTTTGGGGTGTTATGTGAAGCTCAATATTTTCAGAATGTCATGCGTGTTGGTTACCGGTTAAGATCAACATTG

upper sequence: AT1G30400.1 (Arabidopsis thaliana), 3'ss of exon 10
lower sequence: GLYMA15G09900.1 (Glycine max), 3'ss of exon 9
---aatacatttgcatgttgaaaaggttttgtttaat--gtaggtcaaggtgacacttgaccaatggactccttgatcgcttgatgttgatgttgacattttcagGTATTGGGGGTTTTATGTGAAGCTCAGTATTTCCAAAATGTGATGCGTGTTGGTTACCGGCTTAGGTCTGCACTG
   ||    ||   |      |||| |||| |||  |  |||  | | | |||    |      |  |||  || |  || |     |||  ||| | ||   |||| || ||||| |||||||||||||| ||||| || ||||| |||||||||||||||||| | || ||  || ||
tacaagtttttaataaacaataaagatttttttttgtttgtaaattaggctgatctcta--tggtc-acttattaagagcctatc--tgaatttgtctttgatagGTCTTTGGGGTGTTATGTGAAGCTCAATATTTTCAGAATGTCATGCGTGTTGGTTACCGGTTAAGATCAACATTG

upper sequence: AT1G30400.1 (Arabidopsis thaliana), 3'ss of exon 10
lower sequence: Vv10s0003g04390.t01 (Vitis vinifera), 3'ss of exon 9
------aatacatttgcatgttgaaaaggttttgtttaatgtaggtcaaggtgacac--ttgaccaatggactccttgatcgcttgatgttgatgttgacattttcagGTATTGGGGGTTTTATGTGAAGCTCAGTATTTCCAAAATGTGATGCGTGTTGGTTACCGGCTTAGGTCTGCACTG
       |||    ||  | | |  | | | |  ||  |  | | ||   || ||||  |||    | | |||||   |  | ||| | |  |  ||      | |||||||| ||||| |||| ||||||||||||||| || ||||| |||||||| |||| |||| |||| ||  |  ||
gctcttgatattactgt-tatgggcatgctctcattctac-tggatctttgtaacacaattggaagaagaactccac-actgattggtttaaacttt-----ctccagGTATTCGGGGTATTATTTGAAGCTCAGTATTTTCAGAATGTCATGCGTGTGGGTTTCCGGGTTAGATCAACTTTG


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

tgacacttgaccaatggactccttgatcgcttgatgttgatgttgacattttcagGTATTGGGGGTTTTATGTGAAGCTCAGTATTTCCAAAATGTGATGCGTGTTGGTTACCGGCTTAGGTCTGCACTG
                                        tgttgac  putative branch site (score: 3)
                                              cattttc  CT-rich tract
                                             acatttt  TA-rich tract