Sequence
atgc intronic sequence ATGC exonic sequenceTGGAAAGGAAAGCTTAATATCTTCCGGGGATGTAAAATTTCGTGAAACAAGCATTCATTCCCTTCAGCTCCTCTGCAATCTCTTCAATACGTTCTACAAGgtactgatgaagcttctacatttgctccctctgtgctcatcttgtccgttattactcaattaaatttcagggttgttgcagtacttgtcatgtttactgc...
Basic information
species | Arabidopsis thaliana |
transcript | AT3G43300.2 |
intron # | 25 |
splice site | 5' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: AT3G43300.1 (Arabidopsis thaliana), 5'ss of exon 25
lower sequence: LOC_Os07g37750.1 (Oryza sativa), 5'ss of exon 23
---TGGAAAGGAAAGCTTAATATCTTCCGGGGATGTAAAATTTCGTGAAACAAGCATTCATTCCCTTCAGCTCCTCTGCAATCTCTTCAATACGTTCTACAAGgtactgatgaagcttctacatttgctccctctgtgctcatcttgtccgttat--tactcaatta-aatttcagggttgttgcagtacttgtcatgtttactgc
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TGCTGGAAGGGATGGCCTT---TCTTCTGGGGATGACTGGCTTCGTGATACCAGCATTCATTCTCTGCAGTTAATCTGCAACCTTTTCAATACTTTCTACAAGgtaatgtatgttgttctcc-cctgctgattttagttgcttcctagaaattgtgtgggtctattagaatgtcaactgtgctgaaacattttattttctagtt--
upper sequence: AT3G43300.1 (Arabidopsis thaliana), 5'ss of exon 25
lower sequence: GLYMA17G04890.1 (Glycine max), 5'ss of exon 26
TGGAAAGGAAAGCTTAATATCTTCCGGGGATGTAAAATTTCGTGAAACAAGCATTCATTCCCTTCAGCTCCTCTGCAATCTCTTCAATACGTTCTACAAGgtactgatgaagcttctacatttgctccctctgtgctcatcttgtccgttattactcaattaaatttcagggttgttgcag---tacttgtcatg--tttactgc-
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TGGGAAAGAGGGCTTTGTTTCTCCTGATGATGATTGGTTTCGTGAAACAAGCATACATTCGCTTCAGCTGCTATGCAACCTTTTCAACACATTCTATAAGgta------aagaattaacagtattgttttctattccagtaactttaacaagcatacatttgaaatttttgcttataaaaaagttagcagacatggtcttacagtt
upper sequence: AT3G43300.1 (Arabidopsis thaliana), 5'ss of exon 25
lower sequence: GLYMA13G17610.1 (Glycine max), 5'ss of exon 26
TGGAAAGGAAAGCTTAATATCTTCCGGGGATGTAAAATTTCGTGAAACAAGCATTCATTCCCTTCAGCTCCTCTGCAATCTCTTCAATACGTTCTACAAGgtactgatgaagcttctacatttgctccctctgtgctcatcttgtccgttattactcaattaaatttcagggttgttgcag---tacttgtcatgtttactgc-
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TGGGAAAGAGGGCTTTATTTCTCCTGATGATGATTGGTTTCGTGAAACAAGCATACATTCACTTCAGCTTCTATGCAACCTTTTCAACACATTCTATAAGgtaaaga----attaaaacagtcttgttttctattcttgtaactttaacaagcatacatttgaaatttttgcttagaaaaaagttagcagacagtcttacagtt
upper sequence: AT3G43300.1 (Arabidopsis thaliana), 5'ss of exon 25
lower sequence: Vv11s0016g00170.t01 (Vitis vinifera), 5'ss of exon 26
TGGAAAGGAAAGCTTAATATCTTCCGGGGATGTAAAATTTCGTGAAACAAGCATTCATTCCCTTCAGCTCCTCTGCAATCTCTTCAATACGTTCTACAAGgtactgatgaagcttctacatttgctccctctgtgctcatcttgtccgttattactcaattaaatttcagggttgttgcagtacttgtcatgtttactgc-------
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TAGTAAAGAGAGCTTAGTTTCTTCTGGTGATGAGTGGCTTCGTGAAACAAGCATTCACTCGCTTCAGCTGCTTTGCAACCTTTTTAACACTTTTTACAAGgtatgttttttttcccttaaattgtatca--ggtgttgacttag--agaaaagatttga---gagcaaaaattggtagtagaacatgaaaattttgcaatagtgcatMapped 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|86083162|gb|DR378921.1|DR378921EST: GCATTCATTCCCTTCAGCTCCTCTGCAATCTCTTCAATACGTTCTACAAG GAAGTATGTTTTATGCTGCCTCCACTTTTAAGTTTGCTCCTAGACTGTGCG
genomic: GCATTCATTCCCTTCAGCTCCTCTGCAATCTCTTCAATACGTTCTACAAGgtactgatga ... tttggagcagGAAGTATGTTTTATGCTGCCTCCACTTTTAAGTTTGCTCCTAGACTGTGCG
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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
TGGAAAGGAAAGCTTAATATCTTCCGGGGATGTAAAATTTCGTGAAACAAGCATTCATTCCCTTCAGCTCCTCTGCAATCTCTTCAATACGTTCTACAAGgtactgatgaagcttctacatttgctccctctgtgctcatcttgtccgttattactcaattaaatttcagggttgttgcagtacttgtcatgtttactgc
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TCAGCT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - CAGCTC
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - CTCCTC
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - ctccctct