Skip to another splice site:
1  
 5'  3'   		2  
 5'  3'   		3  
 5'  3'   		4  
 5'  3'   

Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtgagtacatttatcattctcttactctcatcctaaacttgcggctgctttcttatgattaccattaattatttagactaatagagtgatatgttttgtgtttcgattacatgacagATCACCAGCGGTTGTTGTAGCGTACTTGATGAAACGAAAAGGGTGGAGACTCGCTGAGAGTCATCAGTGGGTTAAACAACGGAGACCAAGCACTGACATA

Basic information

species Arabidopsis thaliana
transcript AT2G04550.3
intron # 3
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: AT2G04550.1 (Arabidopsis thaliana), 3'ss of exon 3
lower sequence: GLYMA02G43410.1 (Glycine max), 3'ss of exon 3
---------------------------------------------------gtgagta----cattt--atcattctcttactctcatcctaaacttgcggctgctttcttatgattaccat----taattatttagactaatagagtgatatgtt----------ttgtgtttcgattacatg---------acagATCACCAGCGGTTGTTGTAGCGTACTTGATGAAACGAAAAGGGTGGAGACTCGCTGAGAGTCATCAGTGGGTTAAACAACGGAGACCAAGCACTGACATA
                                                   |||| ||    |||||  || | |   | |    |||| |||| |    |    ||  |   | |||   |     |    || | |  |  |  |   ||| |           || | | |  || |||||          ||| || |||||  ||||  | || |||||||||||    |||||||||||||| ||  ||||| |||||||||| ||| ||||||||||      |||  ||
gtaagatattgctgcaacatgctatcataagcatgacggtgacatttggcagtgattagtttcatttgaattagttagtgataaccatcataaaataaaagggaattgatataggttattgtactgcagcctttcaaatgaggaatgcagtatataaatgttattattttctctgaatcacatgtattctacggcagGTCTCCAGCTATTGTGATTGCATACTTGATGAAGTTCAAAGGGTGGAGACTTGCACAGAGTTATCAGTGGGTAAAAGAACGGAGACCTTCTGTTGAATTA
















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|124711524|gb|EH802926.1|EH802926
EST:     TGTCTGGGAAAAGTAG                         ATCACCAGCGGTTGTTGTAGCGTACTTGATGAAACGAAAAGGGTGGAGACT
genomic: TGTCTGGGAAAAGTAGgtgagtacat ... tacatgacagATCACCAGCGGTTGTTGTAGCGTACTTGATGAAACGAAAAGGGTGGAGACT
EST: gi|124819225|gb|EH904091.1|EH904091
EST:     TGCATTGCATGTCTGGGAAAAGTAG                         ATCACCAGCGGTTGTTGTAGCGTACTTGATGAAACGAAAAGGGTGGAGACT
genomic: TGCATTGCATGTCTGGGAAAAGTAGgtgagtacat ... tacatgacagATCACCAGCGGTTGTTGTAGCGTACTTGATGAAACGAAAAGGGTGGAGACT
EST: gi|124711706|gb|EH803108.1|EH803108
EST:     GAGAAGGACAAGGCACGTGTTCTTGTGCATTGCATGTCTGGGAAAAGTAG                         ATCACCAGCGG
genomic: GAGAAGGACAAGGCACGTGTTCTTGTGCATTGCATGTCTGGGAAAAGTAGgtgagtacat ... tacatgacagATCACCAGCGG
EST: gi|19876233|gb|AU237064.1|AU237064
EST:     GAGAAGGACAAGGCACGTGTTCTTGTGCATTGCATGTCTGGGAAAAGTAG                         ATCACCANCGGTTG
genomic: GAGAAGGACAAGGCACGTGTTCTTGTGCATTGCATGTCTGGGAAAAGTAGgtgagtacat ... tacatgacagATCACCAGCGGTTG


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

cattaattatttagactaatagagtgatatgttttgtgtttcgattacatgacagATCACCAGCGGTTGTTGTAGCGTACTTGATGAAACGAAAAGGGTGGAGACTCGCTGAGAGTCATCAGTGGGTTAAACAACGGAGACCAAGCACTGACATA
             gactaat  putative branch site (score: 2)
     attatttagactaata  TA-rich tract