Sequence
atgc intronic sequence ATGC exonic sequenceAAGAGGTCAAGTAATCGGAGAAGACGGGGTTCGTGTTCACAGTATGGTTCTACCAGGACTACCATCTAGTACACAAGTCTACTTCTCAAGTCCAGGAGACgtaattaataatacttgacctcttgttagatcactcaaaatcaaactgaaaattggatactctattttaaaatttaggctacatagctcattaaaattcttctgatacaaaatgctgtccacag
Basic information
species | Arabidopsis thaliana |
transcript | AT5G52100.1 |
intron # | 8 |
splice site | 5' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: AT5G52100.1 (Arabidopsis thaliana), 5'ss of exon 8
lower sequence: LOC_Os03g02690.1 (Oryza sativa), 5'ss of exon 7
AAGAGGTCAAGTAATCGGAGAAGACGGGGTTCGTGTTCACAGTATGGTTCTACCAGGACTACCATCTAGTACACAAGTCTACTTCTCAAGTCCAGGAGACgtaattaataatacttgacctcttgttagatcactcaaaatcaaactgaaaattggatactctattttaaaatttaggctacatagctcattaaaattcttctgatacaaaatgctgtccacag
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AAGGGGTCAGATACTTGGAGAAGATGGGGTGCGTGTCCACAGTATGGTTCTACCAGGCCTTGCTTCCAGTACATCGATCCATTTCTCGGGCCCTGGAGAGgta-ttaataatattt--------------ttgcttgaaatgtcgctgaa--ttgaccac-ctatttttaactattgaattgaccaatcaccaacata-tccag--------------------
upper sequence: AT5G52100.1 (Arabidopsis thaliana), 5'ss of exon 8
lower sequence: LOC_Os03g02570.1 (Oryza sativa), 5'ss of exon 7
AAGAGGTCAAGTAATCGGAGAAGACGGGGTTCGTGTTCACAGTATGGTTCTACCAGGACTACCATCTAGTACACAAGTCTACTTCTCAAGTCCAGGAGACgtaattaataatacttgacctcttgttagatcactcaaaatcaaactgaaaattggatactctattttaaaatttaggctacatagctcattaaaattcttctgatacaaaatgctgtccacag
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AAGGGGTCAGATACTTGGAGAAGATGGGGTGCGTGTCCACAGTATGGTTCTACCAGGCCTTGCTTCCAGCACATCAATCAACTTCTCAGGCCCTGGAGAGgta-tcaataatatgt--------------ttgcttgaaacatggctgga--ctgggcac-cgattttaactgttcaactgaccag-tcaccaacatt-ttcag--------------------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|86083449|gb|DR379208.1|DR379208EST: TACCAGGACTACCATCTAGTACACAAGTCTACTTCTCAAGTCCAGGAGAC GTTTACACTGTTAAACATGACATAATTGACGTAAGGTCCCTAATGCCCGGC
genomic: TACCAGGACTACCATCTAGTACACAAGTCTACTTCTCAAGTCCAGGAGACgtaattaata ... ctgtccacagGTTTACACTGTTAAACATGACATAATTGACGTAAGGTCCCTAATGCCCGGC
Putative cis-regulatory sequences
atgc | intron | ATGC | exonic elements by Pertea et al. |
ATGC | exon | atgc | putative intronic elements |
| | ATGC | putative exonic elements identified for retained introns |
10 20 30 40 50 60 70 80 90 100 110 120 130 140 150 160 170 180 190 200 210 220
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
AAGAGGTCAAGTAATCGGAGAAGACGGGGTTCGTGTTCACAGTATGGTTCTACCAGGACTACCATCTAGTACACAAGTCTACTTCTCAAGTCCAGGAGACgtaattaataatacttgacctcttgttagatcactcaaaatcaaactgaaaattggatactctattttaaaatttaggctacatagctcattaaaattcttctgatacaaaatgctgtccacag
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGGAGA