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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

CTAAACCCTTTAGCTATTTTCAAGCTTCACCGGGAAAGATGCAACACGATGAGGTTATATGGCAGGTCATTAGGCACAAGCACTGTAGTTACATGGCCAAgtatgtattttttatcctcacttgttagctttcaattttcatttgtagctcaatttgttgatgggtttgttttgttctcttttgcttttctag

Basic information

species Arabidopsis thaliana
transcript AT1G23280.1
intron # 1
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: AT1G23280.1 (Arabidopsis thaliana), 5'ss of exon 1
lower sequence: GLYMA06G43930.1 (Glycine max), 5'ss of exon 1
-CTAAACCCTTTAGCTATTTTCAAGCTTCACCGGGAAAGATGCAACACGATGAGGTTATATGGCAGGTCATTAGGCACAAGCACTGTAGTTACATGGCCAAgtatgtattttttatcctcacttgttagctttcaattttcatttgtagctcaatttgttgatgggtttgttttgttctcttttgcttttctag
 |   |||        |   | ||  ||  |    |  |||||| ||||| ||||| |||||||| || || |||||||| || || ||||||||||||||||| |||        ||||||||       ||||||||||| ||     | | ||  |     | ||| |   | | | |||| ||||| |||
CCGCCACCGAAGCAGAACCCTAAAATTTTGCTTC-AGCGATGCAGCACGACGAGGTCATATGGCAAGTTATCAGGCACAACCATTGCAGTTACATGGCCAAgtaagtac-------cctcactt------cttcaattttcactttc--tttacttcctcctcagatttat---gatttttttttcttttgtag

upper sequence: AT1G23280.1 (Arabidopsis thaliana), 5'ss of exon 1
lower sequence: GLYMA12G14000.1 (Glycine max), 5'ss of exon 1
CTAAACCCTTTAGCTA---TTTTCAAGCTTCACCGGGAAAGATGCAACACGATGAGGTTATATGGCAGGTCATTAGGCACAAGCACTGTAGTTACATGGCCAAgtatgtattttt-tatcctcacttgttagctttcaattttcatttgtagctcaatttgttgatgggtttgttttgttctcttttgcttttctag
  | |||    |   |      | || |||  |    || |||||| ||||| ||||| |||||||| || || |||||||| || || ||||||||||||||||| ||    |    || ||| || |    ||   |    |  ||     | |  || ||  |   | |  || ||||  ||||  |||| |||
--ACACCGCCGAAGCAGAACCCTAAAACTTTGCTTC-AACGATGCAGCACGACGAGGTCATATGGCAAGTTATCAGGCACAACCATTGCAGTTACATGGCCAAgtaagttccctcacctcttcaattttccttttcttacgccctcttcagatttatgttttttttaaatgttattcgttcatttttttttttgtag

upper sequence: AT1G23280.1 (Arabidopsis thaliana), 5'ss of exon 1
lower sequence: Vv17s0000g09220.t01 (Vitis vinifera), 5'ss of exon 2
CTAAACCCTTTAGCTATT-TTCAAGCTTCACCGGGAAAGATGCAACACGATGAGGTTATATGGCAGGTCATTAGGCACAAGCACTGTAGTTACATGGCCAAgtatgtattttttatcctcac-ttgttagctttcaattttcatttgt--agctcaatttgttgatgggtttgttttgttctcttttgcttttctag
 || ||     ||   || |||  |  |    | |||||||||||||||| || || |||||||||||||| |||||||| ||||| |||| |||| |||||||    |  | |  | ||      || | ||   ||| |  ||| |     ||| ||  || |  |   | |||| |||  | |||  || |   
-TATACAAACCAGAGTTTATTCTGGAATAGAGGTGAAAGATGCAACACGACGAAGTGATATGGCAGGTCATCAGGCACAACCACTGCAGTTTCATGACCAAgtaaacttgatcttccttcgtaccctttgtttctgattatattttctttgagtcagttgattcaatgtggtatttt-ttcggtgttgtgttgcag-

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|164055460|gb|ES182207.1|ES182207
EST:     GCACTGTAGTTACATGGCCAA                         AATCGAAACTGGAATCTTTTGCAGAAACCAATATAATTGTAACAGGAATCT
genomic: GCACTGTAGTTACATGGCCAAgtatgtattt ... gcttttctagAATCGAAACTGGAATCTTTTGCAGAAACCAATATAAT-GTAACAGGAATCT
EST: gi|116428711|gb|EG471303.1|EG471303
EST:     GAGGTTATATGGCAGGTCATTAGGCACAAGCACTGTAGTTACATGGCCAA                         AATCGAAACTGGAATCTTTTGCAGAAACCAATATAATGTAACAGGAATCTG
genomic: GAGGTTATATGGCAGGTCATTAGGCACAAGCACTGTAGTTACATGGCCAAgtatgtattt ... gcttttctagAATCGAAACTGGAATCTTTTGCAGAAACCAATATAATGTAACAGGAATCTG
EST: gi|116428738|gb|EG471330.1|EG471330
EST:     GAGGTTATATGGCAGGTCATTAGGCACAAGCACTGTAGTTACATGGCCAA                         AATCGAAACTGGAATCTTTTGCAGAAACCAATATAATGTAACAGGAATCTG
genomic: GAGGTTATATGGCAGGTCATTAGGCACAAGCACTGTAGTTACATGGCCAAgtatgtattt ... gcttttctagAATCGAAACTGGAATCTTTTGCAGAAACCAATATAATGTAACAGGAATCTG