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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

CCTGAAAGGCTCAAAGCTCTCTGGAAACGTCTTCAACATCCTTTTTAATCTAAACAAATTTATGGCATTTGAAACCCGGGATCCGTTCCTCATTCGTCAGgtactactccacgtttgatattcaaccttgctgttttcttgacacaatgggcctcttataacatttcaaatgtcaaacgaaaacag

Basic information

species Arabidopsis thaliana
transcript AT5G28850.1
intron # 10
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: AT5G28850.1 (Arabidopsis thaliana), 5'ss of exon 10
lower sequence: LOC_Os10g33680.1 (Oryza sativa), 5'ss of exon 11
CCTGAAAGGCTCAAAGCTCTCTGGAAACGTCTTCAACATCCTTTTTAATCTAAACAAATTTATGGCATTTGAAACCCGGGATCCGTTCCTCATTCGTCAGgt----actactccacgtttgatattcaaccttgctgttttcttgacacaatgggcctcttataacat-ttcaaatgtcaaacgaaaacag
| | ||| | |  || ||||| || ||  | ||||||||||| || ||||| ||||||||||||||||||||||| || ||||| ||||||||||| |||||    || ||| |  |    | |        | |  | ||  | |   ||    |   ||  | ||| ||   || |||           
CTTAAAACGGTGTAAACTCTCAGGGAATATATTCAACATCCTATTCAATCTCAACAAATTTATGGCATTTGAAACTCGTGATCCATTCCTCATTCGCCAGgtgatcacaacttcttgccataaagcagtgaattcactgttaatcatctaaataacaagttggatcatctttttatttcag----------

upper sequence: AT5G28850.1 (Arabidopsis thaliana), 5'ss of exon 10
lower sequence: GRMZM2G148323_T01 (Zea mays), 5'ss of exon 11
CCTGAAAGGCTCAAAGCTCTCTGGAAACGTCTTCAACATCCTTTTTAATCTAAACAAATTTATGGCATTTGAAACCCGGGATCCGTTCCTCATTCGTCAGgtactactccacgtttgatattcaaccttgctgttttcttgacacaatgggcctcttataacatttcaaatgtcaaacgaaaacag
| | ||| | |  || ||||| |||||| | ||||| || ||||| ||||| ||||| || |||||||||||||| || ||||| ||||||||||| |||||  |     |   |   || | ||| ||    ||      |   | |  |  |   ||||  |  | |||||  ||    |    
CTTAAAACGGTGTAAACTCTCAGGAAACATATTCAATATTCTTTTCAATCTCAACAAGTTCATGGCATTTGAAACTCGTGATCCATTCCTCATTCGCCAGgtgat----tataatccttaataaactttagatttgctgccaagtattaag--ttaaataat-tggctaatgtttaattgtag---

upper sequence: AT5G28850.1 (Arabidopsis thaliana), 5'ss of exon 10
lower sequence: PP1S68_31V6.2 (Physcomitrella patens), 5'ss of exon 11
CCTGAAAGGCTCAAAGCTCTCTGGAAACGTCTTCAACATCCTTTTTAATCTAAACAAATTTATGGCATTTGAAACCCGGGATCCGTTCCTCATTCG--------------TCAGgtactactccacgtttgatattcaaccttgctgttttcttgacacaatgggcctcttataacatttcaaatgtcaaacgaaaacag-----------------------------------------------------------------------------------------
  ||||   ||  || || ||||||||| | |||||||| || |||||||| || |||||  |||||||||||||| ||||||||||  | ||  |              ||||  |  |||       | | ||| |   ||||  | | ||   ||   ||   |   |  |      | | | |||||||     |                                                                                          
TTTGAAGAACTGCAAACTATCTGGAAACTTTTTCAACATACTCTTTAATCTCAATAAATTCGTGGCATTTGAAACCAGGGATCCGTTTTTGATCAGAATGgtaaagcaattcagacagcactatttccatcaaattgagatttgccatat-ctcagcatgttgcttcaaatccatatcacctactttcaaacgcttcgattcatctcctgataattgttccctggtcatcacatctgcctcgttgacttacctatttgggtcctaaagttccgttccttatggttgcag

upper sequence: AT5G28850.1 (Arabidopsis thaliana), 5'ss of exon 10
lower sequence: PP1S7_163V6.2 (Physcomitrella patens), 5'ss of exon 11
CCTGAAAGGCTCAAAGCTCTCTGGAAACGTCTTCAACATCCTTTTTAATCTAAACAAATTTATGGCATTTGAAACCCGGGATCCGTTCCTCATTCGTCAGgtactac---tccacgtttgatattcaaccttgctgttttcttgacacaatgggcctcttataacatttcaaatgtcaaacgaaaacag-------------
| | ||  | |  ||  | ||||||||| ||||||| ||||||||||| || ||||||||  | || ||||| || || ||||| ||||| |||||||||||| ||      ||| ||| | | |  | | |  |  |   ||    |  || |  |  ||| |||     ||   || | |   ||               
CTTAAAGCGATGCAAATTATCTGGAAACTTCTTCAATATCCTTTTTAACCTCAACAAATTCGTAGCTTTTGAGACTCGTGATCCTTTCCTTATTCGTCAGgtaatatgttctcacatttaagacttcaacatcttaatcagttagttc--tgagaatgatatcacagcgtgaagaacagatgttcacctaggttggtcatag

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|125075211|gb|EL138861.1|EL138861
EST:     TAAACAAATTTATGGCATTTGAAACCCGGGATCCGTTCCTCATTCGTCAG                         GAGCGCGAGAACCCGACATTGACAGACTGGGACCGTTTTG
genomic: TAAACAAATTTATGGCATTTGAAACCCGGGATCCGTTCCTCATTCGTCAGgtactactcc ... acgaaaacagGAGCGCGAGAACCCGACATTGACAGACTGGGACCGTTTTG