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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtatgtcttgattcgaaatcttaagttagatcaatagtacaattattgcgaaaaagttgtgatagaacaaaagttactatgtttttcctttttcagGGAAGAATGATTCTTGCTCACTTGTGTGATGAGCCTAAAGGACTAAAAACAAACATGTGCATG

Basic information

species Arabidopsis thaliana
transcript AT1G13560.2
intron # 13
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: AT1G13560.2 (Arabidopsis thaliana), 3'ss of exon 13
lower sequence: LOC_Os02g02750.1 (Oryza sativa), 3'ss of exon 13
---gtatgtcttgattcgaaatcttaagttagatcaatagtacaattattgcgaaaaa-gttgtgatagaacaaaagttactatgtttttccttttt---cagGGAAGAATGATTCTTGCTCACTTGTGTGATGAGCCTAAAGGACTAAAAACAAACATGTGCATG
   || | | |      | |   ||  ||  ||   ||  | |  || |||| ||| |   | | || || ||  |  || ||| |  |||  || |   ||||| ||||||||||| |||||||| ||||||||||| ||||| || || |||   |||||||||
atagtttatgtaagccagtatattttggtctgac--atgcttcttttgttgcaaaagacactcttat-gagcattacctaatatctacttctattatgcacagGGCAGAATGATTCTGGCTCACTTATGTGATGAGCCCAAAGGTCTGAAGACAGGGATGTGCATG

upper sequence: AT1G13560.2 (Arabidopsis thaliana), 3'ss of exon 13
lower sequence: LOC_Os02g02750.3 (Oryza sativa), 3'ss of exon 13
---gtatgtcttgattcgaaatcttaagttagatcaatagtacaattattgcgaaaaa-gttgtgatagaacaaaagttactatgtttttccttttt---cagGGAAGAATGATTCTTGCTCACTTGTGTGATGAGCCTAAAGGACTAAAAACAAACATGTGCATG-------------------------------------
   || | | |      | |   ||  ||  ||   ||  | |  || |||| ||| |   | | || || ||  |  || ||| |  |||  || |   ||||| ||||||||||| |||||||| ||||||||||| ||||| || || |||   |||||||||                                     
atagtttatgtaagccagtatattttggtctgac--atgcttcttttgttgcaaaagacactcttat-gagcattacctaatatctacttctattatgcacagGGCAGAATGATTCTGGCTCACTTATGTGATGAGCCCAAAGGTCTGAAGACAGGGATGTGCATGGTTGTTGCCTAATCACCTTTGTTCTTTGGTTTTGTTT

upper sequence: AT1G13560.2 (Arabidopsis thaliana), 3'ss of exon 13
lower sequence: GRMZM2G701058_T01 (Zea mays), 3'ss of exon 11
-gtatgtcttgattcgaaatcttaagt--tagatcaatagtacaattattgcgaaaaagttgtgatagaacaaaagttacta-tgtttttcctttttcagGGAAGAATGATTCTTGCTCACTTGTGTGATGAGCCTAAAGGACTAAAAACAAACATGTGCATG
 | |     | | |  ||  || | |   ||   || ||  ||  || |||   | |  |     ||   |  |   |   | |  |  ||  |   |||||||||||||| |||||||| ||||||||||| || ||||| |||||| |    |||| ||||
gggacaaactcagtgtaatactaacgcactatcacagtatcactctttttgtttatatttataactactgcttataatgtaaataatcatctatgaacagGGAAGAATGATACTTGCTCATTTGTGTGATGAACCCAAAGGTCTAAAATCTGGGATGTTCATG

upper sequence: AT1G13560.2 (Arabidopsis thaliana), 3'ss of exon 13
lower sequence: GRMZM2G466281_T01 (Zea mays), 3'ss of exon 13
gtatgtcttgattcgaaatcttaagttagat-caatagtacaattattgcgaaaaagttgtgata-gaacaaaagtta----ctatgtttttcctttttcagGGAAGAATGATTCTTGCTCACTTGTGTGATGAGCCTAAAGGACTAAAAACAAACATGTGCATG
  ||| |||  ||     |  |     |||| |  |  | || ||| ||      |||    ||| |||||  | ||     ||   | | |   |   ||||||||||||||||| ||||||||||||||||| || || ||  | ||||||   |||||||||
-catg-cttattttatttttctcttacagatgccctctttcagttactgtagtgcagtaaaaatatgaacattactttacatctgcttatattgctccacagGGAAGAATGATTCTGGCTCACTTGTGTGATGAACCCAAGGGTTTGAAAACAGGGATGTGCATG

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|125203148|gb|EL218102.1|EL218102
EST:     AACTGGACTTGCATTTGGATTTTTAGTG                         GGAAGAATGATTCTTGCTCACTTGTGTGATGAGCCTAAAGGACTAAAAACA
genomic: AACTGGACTTGCATTTGGATTTTTAGTGgtatgtcttg ... cctttttcagGGAAGAATGATTCTTGCTCACTTGTGTGATGAGCCTAAAGGACTAAAAACA






















 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

attattgcgaaaaagttgtgatagaacaaaagttactatgtttttcctttttcagGGAAGAATGATTCTTGCTCACTTGTGTGATGAGCCTAAAGGACTAAAAACAAACATGTGCATG
                                ttactatgtttttcct  CT-rich tract
                                    tatgttttt  TA-rich tract