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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

...gtataaatcttaaggagctcacacaaagaaattgttgtctaaaagagaatgtgtcagtgcagaatagctttacttacacagttttcttgtatatggatagGATGATACTGCTTTCGAGAAACAGAGTGCTCTTTTTGCACTTGCAGTCTCAGACATAGTTCTTATAAACAT

Basic information

species Arabidopsis thaliana
transcript AT3G13870.2
intron # 4
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: AT3G13870.2 (Arabidopsis thaliana), 3'ss of exon 4
lower sequence: GLYMA07G01230.1 (Glycine max), 3'ss of exon 4
-gtataaatcttaaggagctcacacaaagaaattgttgtctaaaaga-gaatgtgtcagtgcagaatagctttacttacacagttttcttgtatatggat-agGATGATACTGCTTTCGAGAAACAGAGTGCTCTTTTTGCACTTGCAGTCTCAGACATAGTTCTTATAAACAT
  |   | |||     |      | ||  | |     || | | | | | || | || | |     | | | | |||  | |||    |||| | |   | ||||||| |||||||| || || ||||||||||| ||||| ||||| |||||||| ||||| || ||||||||
catgctattctctgtcattggcaaaaattagaacaaagtatgagaaatggatatttctgcgtt---tcgttctccttgtatagtgaaattgtctttttctcagGATGACACTGCTTTTGAAAAGCAGAGTGCTCTATTTGCTCTTGCTGTCTCAGATATAGTGCTAATAAACAT

upper sequence: AT3G13870.2 (Arabidopsis thaliana), 3'ss of exon 4
lower sequence: GLYMA08G20610.1 (Glycine max), 3'ss of exon 4
gtataaatcttaaggagctcacacaaagaaattgttgtctaaaagagaatgtgtcagtgca-gaatagctttacttacacagttttcttgtatatggat-agGATGATACTGCTTTCGAGAAACAGAGTGCTCTTTTTGCACTTGCAGTCTCAGACATAGTTCTTATAAACAT
  | |  || |     | |||     | |||||        |     ||||  |   |    |  | | | | |||  | | |    |||| | |   | ||||||| |||||||| || || ||||||||||| ||||| ||||| |||||||| ||||| || ||||||||
-aacatgtcattctctg-tcattggcaaaaattagaacagtatgagaaatggatagttttgcgttttgttctccttgtatactgaaattgtctttttctcagGATGACACTGCTTTTGAAAAGCAGAGTGCTCTATTTGCTCTTGCTGTCTCAGATATAGTGCTAATAAACAT

upper sequence: AT3G13870.2 (Arabidopsis thaliana), 3'ss of exon 4
lower sequence: Vv09s0002g02200.t01 (Vitis vinifera), 3'ss of exon 4
gtataaatcttaaggagctcacacaaagaaattgttgtctaaaagagaatgtgtcagtgc-agaatagctt-tacttacacagtt--ttcttg-tatatggatagGATGATACTGCTTTCGAGAAACAGAGTGCTCTTTTTGCACTTGCAGTCTCAGACATAGTTCTTATAAACAT
   |  ||||| |   | |      |      |    |   || || ||||  | | |   || |   |||  |     | | ||  || ||| | | | |  ||||||||||||| || ||||| |||||||| |||||||| ||||| || ||||||||||| || || |||||
---ttgatctttacatgattttg--atctgtctagactaagaaggaaaatggattacttttagcacttcttgcaacctaatatttggtttttgctttcttgtcagGATGATACTGCATTTGAGAAGCAGAGTGCCCTTTTTGCTCTTGCTGTTTCAGACATAGTGCTAATCAACAT

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|116444534|gb|EG487126.1|EG487126
EST:     GCACCGTTGTGATGGATTTAGAGGGTACCGATGGGAGAGAGCGTGGTGAG                         GATGATACTGCTTTCGAGAAACAGAGTGCTCTTTTTGCACTTGCAGTCTCA
genomic: GCACCGTTGTGATGGATTTAGAGGGTACCGATGGGAGAGAGCGTGGTGAGgtgtgtaacc ... atatggatagGATGATACTGCTTTCGAGAAACAGAGTGCTCTTTTTGCACTTGCAGTCTCA






















 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

agaatgtgtcagtgcagaatagctttacttacacagttttcttgtatatggatagGATGATACTGCTTTCGAGAAACAGAGTGCTCTTTTTGCACTTGCAGTCTCAGACATAGTTCTTATAAACAT
                         tacttac  putative branch site (score: 1)
                       tttactta  TA-rich tract