Sequence
atgc intronic sequence ATGC exonic sequenceAACAGATTCTAGGCTCCGACCAGATCAACGACACTTGGAGAACGGTGAATATGAGAAGGCAAATGAAGAGAAACAAAGATTAGAGAGAAGACAAAGAATGgtacactgagtatctcaacactaattctctggtccatgaattcattaacttttttttaaaatgttttaacaactgtaaatggcttatgattctgcag
Basic information
species | Arabidopsis thaliana |
transcript | AT4G12460.2 |
intron # | 9 |
splice site | 5' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: AT4G12460.1 (Arabidopsis thaliana), 5'ss of exon 9
lower sequence: LOC_Os08g05870.1 (Oryza sativa), 5'ss of exon 8
AACAGATTCTAGGCTCCGACCAGATCAACGACACTTGGAGAACGGTGAATATGAGAAGGCAAATGAAGAGAAACAAAGATTAGAGAGAAGACAAAGAATGgtacactgagtatctc-----------aacactaattctctggtccatgaattcatt-aacttttttttaaaatgttttaacaactgtaaatggcttatgattctgcag--------
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TACTGATTCACGGCTAAGGCCAGACCAGCGGCATCTAGAGAACGGTGAATATGAGAAGGCAAACGCGGAGAAGCTGAGGTTGGAACGACGACAAAGAATGgtatgttctctctctctctctctctgtgaaaagaactctttaagatgaacatagatttagcttgtagaaaccatcacgcagttgctgcattttgattgtaat-ctgctttgtcgcag
upper sequence: AT4G12460.1 (Arabidopsis thaliana), 5'ss of exon 9
lower sequence: Vv02s0154g00250.t01 (Vitis vinifera), 5'ss of exon 8
AACAGATTCTAGGCTCCGACCAGATCAACGACACTTGGAGAACGGTGAATATGAGAAGGCAAATGAAGAGAAACAAAGATTAGAGAGAAGACAAAGAATGgtacactgagtatctcaa--cactaattctctggtccatga-attcattaacttttttttaaaatgttttaacaactg--taaatggcttatgattctgcag
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CACGGATTCAAGACTTAGACCAGATCAACGACATCTAGAGAATGGAGAATATGAAAAGGCAAATGCAGAAAAACTACGGTTAGAGAAGCGGCAGAGGATGgtatgagtagctcctcctttccctatttcttcaatccattttattcatggcatcattgtttgatgattttattatttaaccaaattggagattcttgtgc--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|125302091|gb|EL316176.1|EL316176EST: AAGACAAAGAATG TCACGGCAAATTCAGGAAAGTGGGTGGAGACCGAGATGGTTCGAGCCTCAA
genomic: AAGACAAAGAATGgtacactgag ... gattctgcagTCACGGCAAATTCAGGAAAGTGGGTGGAGACCGAGATGGTTCGAGCCTCAA
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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
AACAGATTCTAGGCTCCGACCAGATCAACGACACTTGGAGAACGGTGAATATGAGAAGGCAAATGAAGAGAAACAAAGATTAGAGAGAAGACAAAGAATGgtacactgagtatctcaacactaattctctggtccatgaattcattaacttttttttaaaatgttttaacaactgtaaatggcttatgattctgcag
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TGAAGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGAGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAAGAA