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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtaaattgaccattcatcgaccatgatctgatatcaacatcttgaaacgttttcagtaatgttttggatttcatttttcttgcagATTAAGTTTGAGCAAGGCGTAATTGGGACGCCTCAGCTAACGGATTCTATTGAGATACCGGAATATGTAGAGGTTCTTGGTCAAAAGATTGATCTTAACC

Basic information

species Arabidopsis thaliana
transcript AT4G22240.1
intron # 2
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: AT4G22240.1 (Arabidopsis thaliana), 3'ss of exon 2
lower sequence: GLYMA15G11910.1 (Glycine max), 3'ss of exon 2
-------gtaaattgaccattcatc----gaccatgatctgatatcaacatcttga---aacgttttcagtaatgttttgg-atttcatttttcttgcagATTAAGTTTGAGCAAGGCGTAATTGGGACGCCTCAGCTAACGGATTCTATTGAGATACCGGAATATGTAGAGGTTCTTGGTCAAAAGATTGATCTTAACC
       ||    | | |||| |||    ||| ||  |   |  | || |||||||   | |      ||| |  |||||  || |    | |  |  |||| ||||||||| ||||| ||||||| || || ||||| ||||| ||  | |||||||||||| |||| ||  |||| |||||||||||||| ||||  |
aaagaatgtgttgttaacatttatctttagactatcgtaatagtttaatatcttgatttagctccacaagtgacattttgtcatcttgcatgttgtttagATAAAGTTTGAGGAAGGCATAATTGGCACTCCACAGCTTACGGACTCATTAGAGATACCGGAAAATGTGGAATTTCTGGGTCAAAAGATTGACCTTACAC
















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|86079322|gb|DR375079.1|DR375079
EST:     CGATTAGCACCAACGCTAAATTCGAAATCCGAAGCCCTAAACGCGTCCAG                         ATTAAGTTTGAGCAAGGCGTAATTGGGACGCCTCAGCTAACGGATTCTATT
genomic: CGATTAGCACCAACGCTAAATTCGAAATCCGAAGCCCTAAACGCGTCCAGgtaaattgac ... tttcttgcagATTAAGTTTGAGCAAGGCGTAATTGGGACGCCTCAGCTAACGGATTCTATT
EST: gi|301502185|gb|HO207725.1|HO207725
EST:     CGATTAGCACCAACGCTAAATTCGAAATCCGAAGCCCTAAACGCGTCCAG                         ATTAAGTTTGAGCAAGGCGTAATTGGGACGCCTCAGCTAACGGATTCTATT
genomic: CGATTAGCACCAACGCTAAATTCGAAATCCGAAGCCCTAAACGCGTCCAGgtaaattgac ... tttcttgcagATTAAGTTTGAGCAAGGCGTAATTGGGACGCCTCAGCTAACGGATTCTATT
EST: gi|47830620|gb|CK120304.1|CK120304
EST:     CGATTAGCACCAACGCTAAATTCGAAATCCGAAGCCCTAAACGCGTCCAG                         ATTAAGTTTGAGCAAGGCGTAATTGGGACGCCTCAGCTAACGGATTCTATT
genomic: CGATTAGCACCAACGCTAAATTCGAAATCCGAAGCCCTAAACGCGTCCAGgtaaattgac ... tttcttgcagATTAAGTTTGAGCAAGGCGTAATTGGGACGCCTCAGCTAACGGATTCTATT
EST: gi|47829696|gb|CK119380.1|CK119380
EST:     CGATTAGCACCAACGCTAAATTCGAAATCCGAAGCCCTAAACGCGTCCAG                         ATTAAGTTTGAGCAAGGCGTAATTGGGACGCCTCAGCTAACGGATTCTATT
genomic: CGATTAGCACCAACGCTAAATTCGAAATCCGAAGCCCTAAACGCGTCCAGgtaaattgac ... tttcttgcagATTAAGTTTGAGCAAGGCGTAATTGGGACGCCTCAGCTAACGGATTCTATT
EST: gi|125248180|gb|EL262265.1|EL262265
EST:     AACGCTAAATTCGAAATCCGAAGCCCTAAACGCGTCCAG                         ATTAAGTTTGGGCAAGGCGTAATTGGGACGCCTCAGCTAACGGATTCTATT
genomic: AACGCTAAATTCGAAATCCGAAGCCCTAAACGCGTCCAGgtaaattgac ... tttcttgcagATTAAGTTTGAGCAAGGCGTAATTGGGACGCCTCAGCTAACGGATTCTATT
EST: gi|86081455|gb|DR377212.1|DR377212
EST:     GATTAGCACCAACGCCTAAATTCGAAATCCGAAGCCCTAAACGCGTCCAG                         ATTAAGTTTGAGCAAGGCGTAATTGGGACGCCTCAGCTAACGGATTCTATT
genomic: GATTAGCACCAACG-CTAAATTCGAAATCCGAAGCCCTAAACGCGTCCAGgtaaattgac ... tttcttgcagATTAAGTTTGAGCAAGGCGTAATTGGGACGCCTCAGCTAACGGATTCTATT
EST: gi|86081014|gb|DR376771.1|DR376771
EST:     CGATTAGCACCAACGCTAAATTCGAAATCCGAAGCCCTAAACGCGTCCAG                         ATTAAGTTTGAGCAAGGCGTAATTGGGACGCCTCAGCTAACGGATTCTATT
genomic: CGATTAGCACCAACGCTAAATTCGAAATCCGAAGCCCTAAACGCGTCCAGgtaaattgac ... tttcttgcagATTAAGTTTGAGCAAGGCGTAATTGGGACGCCTCAGCTAACGGATTCTATT
EST: gi|86081824|gb|DR377583.1|DR377583
EST:     CGATTAGCACCAACGCTAAATTCGAAATCCGAAGCCCTAAACGCGTCCAG                         ATTAAGTTTGMGCAAGGCGTAATTGGGACGCCTCAGCTAACGGATTCTATT
genomic: CGATTAGCACCAACGCTAAATTCGAAATCCGAAGCCCTAAACGCGTCCAGgtaaattgac ... tttcttgcagATTAAGTTTGAGCAAGGCGTAATTGGGACGCCTCAGCTAACGGATTCTATT


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

atatcaacatcttgaaacgttttcagtaatgttttggatttcatttttcttgcagATTAAGTTTGAGCAAGGCGTAATTGGGACGCCTCAGCTAACGGATTCTATTGAGATACCGGAATATGTAGAGGTTCTTGGTCAAAAGATTGATCTTAACC
 atctgat  putative branch site (score: 4)
                                      tttcatttttcttgc  putative PPT
                                     atttcatttttctt  TA-rich tract