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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

ATCGAATTCGATACCTTCCGTTGTTGTCAATTCCTCTAAGCAGCATGGTCCAATCATCGTGATTGATAATTACGACAGCTTCACATACAATCTCTGCCAGgtttcatttcgaacacattctcaaatcttcactctacgcttgttagatttttgatgtggaatgtttttgaatctgttttggtgtaaaagcagctgaattt...

Basic information

species Arabidopsis thaliana
transcript AT1G25220.1
intron # 2
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: AT1G25220.2 (Arabidopsis thaliana), 5'ss of exon 2
lower sequence: GRMZM2G325131_T01 (Zea mays), 5'ss of exon 2
ATCGAATTCGATACCTTCCGTTGTTGTCAATTCCTCTAAGCAGCATGGTCCAATCATCGTGATTGATAATTACGACAGCTTCACATACAATCTCTGCCAGgtttcatttcgaac-acattctcaaatcttca--ctctacgcttgttagatttttgatgtggaatgtttttgaatctgt---tttggtgtaaaagcagctgaattt
  ||    || |  |   | | |  | |    |  | | | || |    || |||||||| || || || |||||||||||||||||||| |||||||||||    | |||  | |  ||  |   | |       ||   |   |  ||  | || |||||  | | | ||| |||||   |  ||| |    ||  |||     
GGCGGCACCGGTGGCCGACCTGGACGGCCGCCCGGCCACGGAGAAGCAGCCCATCATCGTCATCGACAACTACGACAGCTTCACATACAACCTCTGCCAGgtaatttgtcgttctatgtttcctgttgtggggggcctgttcccttccgaaatatggtgtgggttatatgtga-tctgtgcgtgcggtatccttgcgactg-----

upper sequence: AT1G25220.2 (Arabidopsis thaliana), 5'ss of exon 2
lower sequence: GRMZM2G171383_T01 (Zea mays), 5'ss of exon 2
ATCGAATTCGATACCTTCCGTTGTTGTCAATTCCTCTAAGCAGCATGGTCCAATCATCGTGATTGATAATTACGACAGCTTCACATACAATCTCTGCCAGgtttcatttcgaacacattctcaaatcttcactctacgcttgttagatttttgat-gtggaatgtttttgaatctgttttggtgtaaaagcagc-tgaattt-----
  ||    || |  |   | | |  | |    |  | | | || |    || ||||| || || ||||| |||||||||||||| ||||| |||||||||||   |     |  || ||||   || ||    | | || ||||   ||    || ||   ||  | |   |||||| |   |||    || |  ||| | |     
GGCGGCGCCGGTGGCCGACCTGGACGGCCGCCCAGCCACGGAGAAGCAGCCCATCATTGTCATCGATAACTACGACAGCTTCACCTACAACCTCTGCCAGgtagtac----acgacgttct---atgttgttacgaggcgtgttcccttccgaattgtttgattatatgtcatctgtgtcactgtgtgtgcggtgtgagtgtccttg

upper sequence: AT1G25220.2 (Arabidopsis thaliana), 5'ss of exon 2
lower sequence: Vv01s0011g06260.t01 (Vitis vinifera), 5'ss of exon 2
------ATCGAATTCGATACCTTCCGTTGTTGTCAATTCCTCTAAGCAGCATGGTCCAATCATCGTGATTGATAATTACGACAGCTTCACATACAATCTCTGCCAGgtttcatttcgaacacattctcaaatcttcactctacgcttgttagatttttgatgtggaatgttt--ttgaatctgtt-ttggtgtaaaagcagctgaattt
      |||||| || |   |  | ||| | | |||         |  | |   ||| ||| |||| ||||||||||||||||||||||| |||||||| ||||||||||  |||    | | ||| |     ||   || |  ||||||  |||   | | | || | |||  |||   ||  |  || ||          |   || 
TGCCGAATCGAACTCCAGGTCGCCGGTTTTGGACAAC------GGGACGAAGAATCCGATCGTCGTCATTGATAATTACGACAGCTTCACTTACAATCTTTGCCAGgttttttttttctc-ctttcgctttcttttgatccattcttgtt--attcacggttttgattttttgtttggcgctaatgctgatgggtggtttttttggttg

upper sequence: AT1G25220.2 (Arabidopsis thaliana), 5'ss of exon 2
lower sequence: EFJ35047 (Selaginella moellendorffii), 5'ss of exon 1
ATCGAATTCGATACCTTCCGTTGTTGTCAATTCCTCTAAGCAGCATGGTCCAATCATCGTGATTGATAATTACGACAGCTTCACATACAATCTCTGCCAGgtttcatttcgaacacattctcaaatcttcactctacgcttgttagatttttgatgtggaatgtttttgaatctgttttggtgtaaaagcagctgaattt
                                     ||   ||   | ||  |  | ||||| ||||| || |||||||||||||||||  ||||||||||| |||||        |||||   | ||    |   | |  || ||| | || | || |                                        
-------------------------------------AAATCGCGAAGCCCTGTTGTTGTGATCGATAACTATGACAGCTTCACATACAACATCTGCCAGgttccatttt---tttgttctct--tttttctcccttgttcattcgatctatgctctgcag---------------------------------------

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|116410668|gb|EG453260.1|EG453260
EST:     CAATCATCGTGATTGATAATTACGACAGCTTCACATACAATCTCTGCCAG                         TATATGGGAGAGCTAGGATGCCATTTTGAAGTTTACCGCAATGATGAACTT
genomic: CAATCATCGTGATTGATAATTACGACAGCTTCACATACAATCTCTGCCAGgtttcatttc ... atttctacagTATATGGGAGAGCTAGGATGCCATTTTGAAGTTTACCGCAATGATGAACTT
EST: gi|125148036|gb|EL181951.1|EL181951
EST:     ATCGTGATTGATAATTACGACAGCTTCACATACAATCTCTGCCGG                         TATATGGGAGAG
genomic: ATCGTGATTGATAATTACGACAGCTTCACATACAATCTCTGCCAGgtttcatttc ... atttctacagTATATGGGAGAG
EST: gi|152034114|gb|BP867970.2|BP867970
EST:     CAATCATCGTGATTGATAATTACGACAGCTTCACATACAATCTCTGCCAG                         TATATGGGAGAGCTAGGATGCCATTTTGAAGTTTACCGCAATGATGAACTT
genomic: CAATCATCGTGATTGATAATTACGACAGCTTCACATACAATCTCTGCCAGgtttcatttc ... atttctacagTATATGGGAGAGCTAGGATGCCATTTTGAAGTTTACCGCAATGATGAACTT