Sequence
atgc intronic sequence ATGC exonic sequenceATGTTGACAACGAATGGGTGGAGCAAGATGAGCCTGGCGTTTATATCACCATTAAAGTTTTACCAGGTGGGAAAAGAGAGCTTCGAAGAGTCAGATTCAGgtactgttaaacttccttacattgtctcaaaacccgggtttatccatcggttctgaactaaacatcactcaaactgtgttttcttttgcattgcag
Basic information
species | Arabidopsis thaliana |
transcript | AT5G20540.1 |
intron # | 4 |
splice site | 5' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: AT5G20540.1 (Arabidopsis thaliana), 5'ss of exon 4
lower sequence: GLYMA15G18980.1 (Glycine max), 5'ss of exon 3
ATGTTGACAACGAATGGGTGGAGCAAGATGAGCCTGGCGTTTATATCACCATTAAAGTTTTACCAGGTGGGAAAAGAGAGCTTCGAAGAGTCAGATTCAGgta---ctgttaaacttccttacattgtctcaa-aacccgggttt---atccatcggttctgaactaaa-catcactcaaactgtgttttcttttgcattgcag
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ACTTTGACAATGAATGGGTTGAGCAGGATGAGCCTGGGGTTTACATCACCATCAGAGCTCTCCTGGGTGGCAAAAAGGAGCTCAGACGAGTCAGGTTCAGgtaggctcgccacaaattgggtctttggatcaacaactttgattttagatgattcaggtttacttaaaggttttactgaaattgatatttggcctaaatg----
upper sequence: AT5G20540.1 (Arabidopsis thaliana), 5'ss of exon 4
lower sequence: GLYMA09G07930.1 (Glycine max), 5'ss of exon 3
ATGTTGACAACGAATGGGTGGAGCAAGATGAGCCTGGCGTTTATATCACCATTAAAGTTTTACCAGGTGGGAAAAGAGAGCTTCGAAGAGTCAGATTCAGgtactgtt-----aaacttccttacattgtctcaaaacccgggtttatccatcggttctgaactaaacatcactcaaactgtgttttcttttgcattgcag---
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ACCTTGACACTGAATGGGTTGAGCAGGATGAGCCTGGGGTTTACATCACCATCAGAGCTCTCCCAGGTGGCAAAAAGGAGCTCAGACGAGTCAGGTTCAGgtatgcttgctacaaattttgtgtctttagaccaacac---aggttataaataaggttttaaagatctatgact-agttggtaattgacataaagctttatgacMapped 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|86088309|gb|DR384068.1|DR384068EST: ATTAAAGTTTTACCAGGTGGGAAAAGAGAGCTTCGAAGAGTCAGATTCAG CCGAGAGAGATTCGGGGAGATGCACGCGAGATTATGGTGGGAAGAGAACAG
genomic: ATTAAAGTTTTACCAGGTGGGAAAAGAGAGCTTCGAAGAGTCAGATTCAGgtactgttaa ... tgcattgcagCCGAGAGAGATTCGGGGAGATGCACGCGAGATTATGGTGGGAAGAGAACAG
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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
ATGTTGACAACGAATGGGTGGAGCAAGATGAGCCTGGCGTTTATATCACCATTAAAGTTTTACCAGGTGGGAAAAGAGAGCTTCGAAGAGTCAGATTCAGgtactgttaaacttccttacattgtctcaaaacccgggtttatccatcggttctgaactaaacatcactcaaactgtgttttcttttgcattgcag
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGAGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGAGCT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GAGCTT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - CGAAGA