Sequence
atgc intronic sequence ATGC exonic sequenceAATCTAAATCCACGATCGGTGTAGAATTCGCCACTCGTAGCATCCATGTCGATGATAAGATCGTCAAAGCTCAGATTTGGGATACCGCTGGCCAAGAAAGgtatatatatatatatatatatatatatatatgtatgcctcgatttcaattttgagaaattttcgttttcgattgaatctgaagaaacatacattgattcctgatacattagcttgattattgaatgatctacgtaatcgtgattgatttttggttttgaag
Basic information
species | Arabidopsis thaliana |
transcript | AT5G60860.1 |
intron # | 1 |
splice site | 5' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: AT5G60860.1 (Arabidopsis thaliana), 5'ss of exon 1
lower sequence: Vv19s0014g01820.t01 (Vitis vinifera), 5'ss of exon 1
AATCTAAATCCACGATCGGTGTAGAATTCGCCACTCGTAGCATCCATGTCGATGATAAGATCGTCAAAGCTCAGATTTGGGATACCGCTGGCCAAGAAAGgtatatatatatatatatatatatatatatatgtatgcctcgatttcaattttgagaaattttcgttttcgattgaatctgaagaaacatacattgattcctgatacattagcttgattattgaatgatctacgtaatcgtgattgatttttggttttgaag
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AATCCAAATCCACTATCGGTGTTGAATTCGCCACCCGGAGTATTCGGGTGGATGACAAGATCGTCAAGGCTCAGATTTGGGACACTGCTGGCCAGGAGAGgttcgttcttgttcccatgttggtgttttggtg---atttgggttttttctttcactctgtttggttgatgggaaattgtaaaggaa-atacggag-ttttgggt---------------------------------------------------------
upper sequence: AT5G60860.1 (Arabidopsis thaliana), 5'ss of exon 1
lower sequence: Vv10s0003g00550.t01 (Vitis vinifera), 5'ss of exon 1
AATCTAAATCCACGATCGGTGTAGAATTCGCCACTCGTAGCATCCATGTCGATGATAAGATCGTCAAAGCTCAGATTTGGGATACCGCTGGCCAAGAAAGgtatatatatatatatatatatatatatatatgtatgcctcgatttcaattttgagaaattttcgttttcgattgaatctgaagaaacatacattgattcctgatacattagcttgattattgaatgatctacgtaatcgtgattgatttttggttttgaag
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AATCGAAGTCTACCATCGGCGTCGAATTCGCCACCCGCAGCATTCGTGTCGATGATAAGGTCGTCAAGGCCCAGATTTGGGACACCGCTGGCCAGGAGAGgtatcttctttttctctcttttccattcggaattcagatctgtcattgctgtcgagaa---tgcctgttc-attttatctgc-----ttctctttgatgatttgtatgt-----------------------------------------------------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|19878711|gb|AU239542.1|AU239542EST: GATGATAAGATCGTCAAAGCTCAGATTTGGGATACCGCTGGCCAAGAAAG ATATCGAGCAATCACAAGTGCATATTACAGAGGAGCTGTAGGAGCGTTGCT
genomic: GATGATAAGATCGTCAAAGCTCAGATTTGGGATACCGCTGGCCAAGAAAGgtatatatat ... ggttttgaagATATCGAGCAATCACAAGTGCATATTACAGAGGAGCTGTAGGAGCGTTGCT
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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
AATCTAAATCCACGATCGGTGTAGAATTCGCCACTCGTAGCATCCATGTCGATGATAAGATCGTCAAAGCTCAGATTTGGGATACCGCTGGCCAAGAAAGgtatatatatatatatatatatatatatatatgtatgcctcgatttcaattttgagaaattttcgttttcgattgaatctgaagaaacatacattgattcctgatacattagcttgattattgaatgatctacgtaatcgtgattgatttttggttttgaag
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGCTCA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGAAA