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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gttggaatacatactttcatcacgtatatgttttagggtccaaatgttccatgggttctcatatcatgctctatatttgcctttgacagATCAGTGCTTTGAAAGGGGAAAATGTCGATGATCTGTTGGAAACTGTCATGCTTGTTGCAGAG

Basic information

species Arabidopsis thaliana
transcript AT1G17220.1
intron # 5
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: AT1G17220.1 (Arabidopsis thaliana), 3'ss of exon 5
lower sequence: GRMZM2G007038_T01 (Zea mays), 3'ss of exon 5
gttggaatacatactttcatcacgtatatgttttagggtccaaatgttccatgggttctcatatcatgctctatatttg-cctttgacagATCAGTGCTTTGAAAGGGGAAAATGTCGATGATCTGTTGGAAACTGTCATGCTTGTTGCAGAG
||||       | |     | |   |   | |  |  ||  |    |   ||   | |  || | |  |  | ||||||  || |  ||||| |||||| | |  ||||| ||||| ||||| ||  ||||||||||||||||||||||||||
gttgctgattgtgccaatttaaaacagtagctcaatagtatag-catcttat---tacctatttgaaccattttatttgatctctaccagATAAGTGCTCTTACTGGGGATAATGTTGATGAACTTCTGGAAACTGTCATGCTTGTTGCAGAG

upper sequence: AT1G17220.1 (Arabidopsis thaliana), 3'ss of exon 5
lower sequence: GLYMA08G18580.1 (Glycine max), 3'ss of exon 6
-------gttggaatacat-actttcatcacgtatatgttttagggtcca--aatgttccatgggttctcatatcatgctctatatttgcctttgacagATCAGTGCTTTGAAAGGGGAAAATGTCGATGATCTGTTGGAAACTGTCATGCTTGTTGCAGAG
        ||   ||   |  || ||||   ||||    |||| | |  |  ||  ||| |   ||| |  | |  |  | |    ||   |   |||||| |||||| | |||||| | ||| | |||||||| ||||||||||| ||||||||||| |||
gttagtatttcttatttgtcgctatcattttgtatcctgtttatgatttattaactttcaagaagttatatttttctcttgttctcttatgtccaacagATAAGTGCTCTTAAAGGGAAGAATATAGATGATCTTTTGGAAACTGTTATGCTTGTTGCTGAG

upper sequence: AT1G17220.1 (Arabidopsis thaliana), 3'ss of exon 5
lower sequence: Vv19s0027g00130.t01 (Vitis vinifera), 3'ss of exon 5
gttggaatacatactttcatcacgtatatg----ttttagggtccaaatgttccatgggttctcatatcatgctctatatttgcctttgacagATCAGTGCTTTGAAAGGGGAAAATGTCGATGATCTGTTGGAAACTGTCATGCTTGTTGCAGAG
||    ||  ||   |  |    |||  ||    |||   ||| |  |  | || ||  | |  || | ||  |||   | |  |  | ||||||||||||| | |||||||| ||||| |||||| |||| |||||| |||||||||| ||||||
gtctttatttattagtagaaagtgtacttgcatctttcttggttctta-atcccttgtatacctatttgattttct---tctatccctaacagATCAGTGCTCTTAAAGGGGAGAATGTAGATGATTTGTTAGAAACTATCATGCTTGTAGCAGAG

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|47831587|gb|CK121271.1|CK121271
EST:     CAATTGGTTTGATGCCTGAAGATTGGGGTGGTGATGTTCCAATGGTTCAG                         ATCAGTGCTTTGAAAGGGGAAAATGTCGATGATCTGTTGGAAACTGTCATG
genomic: CAATTGGTTTGATGCCTGAAGATTGGGGTGGTGATGTTCCAATGGTTCAGgttggaatac ... cctttgacagATCAGTGCTTTGAAAGGGGAAAATGTCGATGATCTGTTGGAAACTGTCATG






















 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

agggtccaaatgttccatgggttctcatatcatgctctatatttgcctttgacagATCAGTGCTTTGAAAGGGGAAAATGTCGATGATCTGTTGGAAACTGTCATGCTTGTTGCAGAG
                                         tttgccttt  CT-rich tract
                                   tctatattt  TA-rich tract