Sequence
atgc intronic sequence ATGC exonic sequenceGTTTCTTTTGGATTCCATCTCTGGGTGGACCAACATCTATAGCTGCTCGGCAGAGTGGATCCGGCATTTCGTGGCTTTTTCCGTTTGTGgtaatggaagaaaaaaactttatgtgaatacgttttctcatttgatacttatctttatactaaaaaatttcatacaactgagtcttttgctgtgcaatgaacctttatcaaattggtgtctaatatcgttcggtggtgcag
Basic information
species | Arabidopsis thaliana |
transcript | AT2G28800.4 |
intron # | 5 |
splice site | 5' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: AT2G28800.4 (Arabidopsis thaliana), 5'ss of exon 5
lower sequence: LOC_Os01g05800.1 (Oryza sativa), 5'ss of exon 6
-----------GTTTCTTTTGGATTCCATCTCTGGGTGGACCAACATCTATAGCTGCTCGGCAGAGTGGATCCGGCATTTCGTGGCTTTTTCCGTTTGTGgtaatggaagaaaaaaactttatgtgaatacgttttctcatttgatacttatctttatactaaaaaatttcatacaactgagtcttttgctgtgcaatgaacctttatcaaattggtgtctaatatcgttcggtggtgcag
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ACTGACAGAAGGATTTTTCTGGATTCCATCTTTGGGAGGCCCTACAACAATTGCTGCTCGGCAAAGTGGTGCTGGCATTTCTTGGCTCTTGCCTTTTGTGgtaata----aaattgatcacacgttaacatatatcaacaatt-----tcattgctgatctaggaaaatcaggtttatagtgcacttga--gcgaatttaacctcattttc------------------------------
upper sequence: AT2G28800.4 (Arabidopsis thaliana), 5'ss of exon 5
lower sequence: Vv06s0004g04460.t01 (Vitis vinifera), 5'ss of exon 6
-----------GTTTCTTTTGGATTCCATCTCTGGGTGGACCAACATCTATAGCTGCTCGGCAGAGTGGATCCGGCATTTCGTGGCTTTTTCCGTTTGTGgtaatggaagaaaaaaactttatgtgaatacgttttctcatttgatacttatctttatactaaaaaatttcatacaactgagtcttttgctgtgcaatgaacctttatcaaattggtgtctaatatcgttcggtggtgcag
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GTTGACAGAAGGGTTTTTTTGGATTCCCTCTTTGGGTGGGCCAACTACAATTGCTGCTCGACAAAGTGGATCTGGCATTTCTTGGCTTATTCCGTTTGTGgtaatcaaaaataa-----ttactgggacttgtgaagctaactgatatctctgccgcttctcaaca----tatgtagttatcttgcatcatttgttatgaacctc-atgg-------------------------------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|164227990|gb|ES046565.1|ES046565EST: AGCTGCTCGGCAGAGTGGATCCGGCATTTCGTGGCTTTTTTCCGTTTGTG GACGGGCATCCACC
genomic: AGCTGCTCGGCAGAGTGGATCCGGCATTTCGTGGCTTTTT-CCGTTTGTGgtaatggaag ... ggtggtgcagGACGGGCATCCACC
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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
GTTTCTTTTGGATTCCATCTCTGGGTGGACCAACATCTATAGCTGCTCGGCAGAGTGGATCCGGCATTTCGTGGCTTTTTCCGTTTGTGgtaatggaagaaaaaaactttatgtgaatacgttttctcatttgatacttatctttatactaaaaaatttcatacaactgagtcttttgctgtgcaatgaacctttatcaaattggtgtctaatatcgttcggtggtgcag
- - - - - - - - - - - - - - - - - - - - AGCTGC
- - - - - - - - - - - - - - - - - - - - GCTGCT
- - - - - - - - - - - - - - - - - - - - - - - - - - AGTGGA