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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gttaggacagattcctccatctatggatctgcgctctcttttcttgttgcatttgatctttacggctttcttttcgacagGCATATTCTCCTATGCCGCCGCCTCATGGTTATGTGGCATCTAGTCCCCAACCTCACCCTTATATGTGGGGAGTTCAG

Basic information

species Arabidopsis thaliana
transcript AT2G35530.1
intron # 3
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: AT2G35530.1 (Arabidopsis thaliana), 3'ss of exon 3
lower sequence: GLYMA09G34170.1 (Glycine max), 3'ss of exon 3
------gttaggacagattcct----ccatctatggatctgcgctctcttttcttgttgcatttgatctt------tacggctttctt-ttcgacagGCATATTCTCCTATGCCGCCGCCTCATGGTTATGTGGCATCTAGTCCCCAACCTCACCCTTATATGTGGGGAGTTCAG
       || | ||||  |  |     |||  |||| |   || | || ||  |      ||| ||| ||      | | |||  ||| ||    |||||||||||||||| || || |   ||||||   ||||||| ||||||||  ||||||||||||||||||| || |||
gtttttattggaacagtcttttgctggcattaatggcttatcgttttcattattgtcaagattggattttggttcatccagctcccttattttttagGCATATTCTCCTATACCTCCAC---ATGGTTTCTTGGCATCAAGTCCCCAGGCTCACCCTTATATGTGGGGTGTCCAG

upper sequence: AT2G35530.1 (Arabidopsis thaliana), 3'ss of exon 3
lower sequence: Vv02s0012g02250.t01 (Vitis vinifera), 3'ss of exon 3
-----------------------gttaggac--agattcctccatctatggatctgcgctctctttt-----cttgttgcatttgatctttacggctttcttttcg--acagGCATATTCTCCTATGCCGCCGCCTCATGGTTATGTGGCATCTAGTCCCCAACCTCACCCTTATATGTGGGGAGTTCAG
                       | |   ||  ||  |  |||||   ||  |      | ||||||      || |     ||||  |       ||| ||||    ||||||||||||||| || || || |   |||| |   |||| || ||||||||| |||||||||| |||||||||||||||
gttcctttagtcaaaacttaaaagcttatactaagggttttccattgttgctttcttattgtcttttaattgtttatgtggcttgacttaattttttttatttttattacagGCATATTCTCCCATACCTCCAC---ATGGGTTCTTGGCGTCAAGTCCCCAAGCTCACCCTTACATGTGGGGAGTTCAG
















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|86070242|gb|DR365999.1|DR365999
EST:     CATCGGCTGTGAGTGCTGGCATGGCTACTCCAGATTGGTCTGGTTTTCAG                         GCATATTCTCCTATGCCGCCGCCTCATGGTTATGTGGCATCTAGTCCCCAA
genomic: CATCGGCTGTGAGTGCTGGCATGGCTACTCCAGATTGGTCTGGTTTTCAGgttaggacag ... ttttcgacagGCATATTCTCCTATGCCGCCGCCTCATGGTTATGTGGCATCTAGTCCCCAA
EST: gi|86070243|gb|DR366000.1|DR366000
EST:     CATCGGCTGTGAGTGCTGGCATGGCTACTCCAGATTGGTCTGGTTTTCAG                         GCATATTCTCCTATGCCGCCGCCTCATGGTTATGTGGCATCTAGTCCCCAA
genomic: CATCGGCTGTGAGTGCTGGCATGGCTACTCCAGATTGGTCTGGTTTTCAGgttaggacag ... ttttcgacagGCATATTCTCCTATGCCGCCGCCTCATGGTTATGTGGCATCTAGTCCCCAA
EST: gi|86070244|gb|DR366001.1|DR366001
EST:     CATCGGCTGTGAGTGCTGGCATGGCTACTCCAGATTGGTCTGGTTTTCAG                         GCATATTCTCCTATGCCGCCGCCTCATGGTTATGTGGCATCTAGTCCCCAA
genomic: CATCGGCTGTGAGTGCTGGCATGGCTACTCCAGATTGGTCTGGTTTTCAGgttaggacag ... ttttcgacagGCATATTCTCCTATGCCGCCGCCTCATGGTTATGTGGCATCTAGTCCCCAA


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

gatctgcgctctcttttcttgttgcatttgatctttacggctttcttttcgacagGCATATTCTCCTATGCCGCCGCCTCATGGTTATGTGGCATCTAGTCCCCAACCTCACCCTTATATGTGGGGAGTTCAG
                         atttgat  putative branch site (score: 5)
                                        ctttcttttc  putative PPT
                                         tttctttt  TA-rich tract