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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtatagacttcgactgcattctggccgcttctatggctcaccattgataatcagaacctctcatacgtttgattcattatgtcacagCGATGATTCAGCAACCACGTGTACCTTCTTCTGGGTTGATGCCTGCCAGTGATGTCCTGATTCGGGCCAAAGAG

Basic information

species Arabidopsis thaliana
transcript AT1G09130.2
intron # 5
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: AT1G09130.3 (Arabidopsis thaliana), 3'ss of exon 5
lower sequence: GRMZM2G030072_T03 (Zea mays), 3'ss of exon 3
--------gtatagacttcga---ctgcattctggcc-gcttctatggctcaccattgataatcagaacctctcatacgtttgattcattatgtcacagCGATGATTCAGCAACCACGTGTACCTTCTTCTGGGTTGATGCCTGCCAGTGATGTCCTGATTCGGGCCAAAGAG
        ||    |||||     |||  ||||  ||  |    |   |||||  ||| | ||||   |||    |   | ||  ||||  | |  |||| |||||||||||||||||| | ||||||| |||| ||||||  ||    |||||  | ||||| || || |||
gtagtaacgtgctaacttccgtacctgttttctttcccacgggaaatactcacttttgctcatcatttcctgc--tgattctggatcatactatgtcagCTATGATTCAGCAACCACGTATTCCTTCTTATGGGATGATGCAAGCATCAGATGTTGTTATTCGTGCAAAGGAG

upper sequence: AT1G09130.3 (Arabidopsis thaliana), 3'ss of exon 5
lower sequence: GLYMA19G42180.2 (Glycine max), 3'ss of exon 5
gtatagacttcgactgcattctggccgcttctatggctcaccattgataatcagaacctctcatacgtttgattcattatgtcacagCGATGATTCAGCAACCACGTGTACCTTCTTCTGGGTTGATGCCTGCCAGTGATGTCCTGATTCGGGCCAAAGAG
||| ||  || || |  | | ||     || |     | |    | | |     ||    |  | |  ||||||   | |||  |||| ||||||||||| || ||| | ||||| ||||||||||||||||| |||||||| || ||||| || || |||
gtacag-tttggatttaactttgtggctttgttcctttaattccttacagatgtaatagtt--ttctattgatt---tctgtttcagCCATGATTCAGCAGCCTCGTATTCCTTCCTCTGGGTTGATGCCTGCAAGTGATGTTCTTATTCGTGCAAAGGAG

upper sequence: AT1G09130.3 (Arabidopsis thaliana), 3'ss of exon 5
lower sequence: GLYMA03G39570.1 (Glycine max), 3'ss of exon 5
gtatagacttcgactgcattctggccgcttctatggctcaccattgataatcagaacctctcatacgtttgattcattatgtcacagCGATGATTCAGCAACCACGTGTACCTTCTTCTGGGTTGATGCCTGCCAGTGATGTCCTGATTCGGGCCAAAGAG
||| | | || || |  | | ||     || |     | |    | | |     ||    |  | |  ||||||   |  ||  |||| ||||||||||| || ||| | ||||| ||||||||||||||||| |||||||| || ||||| || || |||
gtaca-atttggatttaactttgtggctttgttcctttaattccttacagctgtaatagtt--ttctattgatt---tcggtttcagCCATGATTCAGCAGCCTCGTATTCCTTCCTCTGGGTTGATGCCTGCAAGTGATGTTCTTATTCGTGCAAAGGAG

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|125140249|gb|EL178593.1|EL178593
EST:     ACTTTCTGCGGGAACCAAGGGTAAACGGTTTATGATGCCACATGCCAAAG                         CGATGATTCAGCAACCACGTGTACCTTCTTCTGGGTTGATG
genomic: ACTTTCTGCGGGAACCAAGGGTAAACGGTTTATGATGCCACATGCCAAAGgtatagactt ... tatgtcacagCGATGATTCAGCAACCACGTGTACCTTCTTCTGGGTTGATG
EST: gi|86066846|gb|DR362603.1|DR362603
EST:     ACTTTCTGCGGGAACCAAGGGTAAACGGTTTATGATGCCACATGCCAAAG                         CGATGATTCAGCAACCACGTGTACCTTCT
genomic: ACTTTCTGCGGGAACCAAGGGTAAACGGTTTATGATGCCACATGCCAAAGgtatagactt ... tatgtcacagCGATGATTCAGCAACCACGTGTACCTTCT


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

atggctcaccattgataatcagaacctctcatacgtttgattcattatgtcacagCGATGATTCAGCAACCACGTGTACCTTCTTCTGGGTTGATGCCTGCCAGTGATGTCCTGATTCGGGCCAAAGAG
          attgataat  TA-rich tract