Sequence
atgc intronic sequence ATGC exonic sequenceTTTCGTACCAGCTCAAAGACAGGCTACAGTTATCACCATCAGCTTCTCAGTTTGTCTTTTCGGTTGCCTTTTTTCCATGGAGCATAAAACCATTATATGGgtatgaatcttcatgaattacgaatgatgactcaaagtcttgattcaagtaggagctttgtagtaatgatatgtttttttttctcttttggtttttggtag
Basic information
species | Arabidopsis thaliana |
transcript | AT5G54860.1 |
intron # | 2 |
splice site | 5' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: AT5G54860.1 (Arabidopsis thaliana), 5'ss of exon 2
lower sequence: GLYMA18G11640.1 (Glycine max), 5'ss of exon 2
TTTCGTACCAGCTCAAAGACAGGCTACAGTTATCACCATCAGCTTCTCAGTTTGTCTTTTCGGTTGCCTTTTTTCCATGGAGCATAAAACCATTATATGGgtatgaatcttcatgaattacg---aatgatgactca--------aagtcttgattcaagtagg-agctttgtagtaatgatatgtttttttttctcttttggtttttggtag
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TTTCCTACCAGCTTAAAGATAATCTTAAGTTGTCACCCTCAGCTTCCCAATTTGTGTTTTCTGTAGCATTTTTCCCATGGAGCATTAAACCATTATATGGgtatggatctttggtcgttttttttattgattattcacttgtaaaaacccttaatatatgtagggagatttgtgcaaattatatcggcctggataaattt-------------
upper sequence: AT5G54860.1 (Arabidopsis thaliana), 5'ss of exon 2
lower sequence: GLYMA08G42640.1 (Glycine max), 5'ss of exon 2
TTTCGTACCAGCTCAAAGACAGGCTACAGTTATCACCATCAGCTTCTCAGTTTGTCTTTTCGGTTGCCTTTTTTCCATGGAGCATAAAACCATTATATGGgtatgaatcttcatgaattacgaatgatgactcaaagtcttgattcaagtaggagctttgtagtaatgatatgtttttttttctcttttggtttttggtag------
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TTTCCTACCAGCTTAAAGATAATCTTAAGTTGTCACCCTCAGCTTCCCAATTTGTGTTTTCAGTAGCATTTTTCCCATGGAGCATTAAACCATTATACGGgtacggatca--atggtccttttttcattgatta-----ttcacttgtaaaaacacttaatacacgtagggagatttgttcatgaatacaaagcacaaaagtaatgt
upper sequence: AT5G54860.1 (Arabidopsis thaliana), 5'ss of exon 2
lower sequence: Vv19s0090g00060.t01 (Vitis vinifera), 5'ss of exon 2
TTTCGTACCAGCTCAAAGACAGGCTACAGTTATCACCATCAGCTTCTCAGTTTGTCTTTTCGGTTGCCTTTTTTCCATGGAGCATAAAACCATTATATGGgtatgaatcttcatgaattacgaatgatgactcaaagtcttgattcaagtaggagctttgtagtaatga-tatgtttttttttctcttttggtttttggtag
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TTTCCTACCAGCTAAAAGACAGGCTTAAGTTGTCACCCTCAGCCTCTCAATTTGTGTATTCAATAGCAATCTTCCCATGGAGCATAAAACCATTATATGGgtatgcatttatttatcttgtgc-tcttttttgtctattattttttatatgtgtgcattggtgtcataaacaaaaaagagttttctgtttagcaactccaa-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|116482509|gb|EG525101.1|EG525101EST: TTTGTCTTTTCGGTTGCCTTTTTTCCATGGAGCATAAAACCATTATATGG AATCATTTCAGATTGTATACCAATTGGAGGGAAAAAGAGGACGCCGTATTT
genomic: TTTGTCTTTTCGGTTGCCTTTTTTCCATGGAGCATAAAACCATTATATGGgtatgaatct ... tttttggtagAATCATTTCAGATTGTATACCAATTGGAGGGAAAAAGAGGACGCCGTATTT
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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
TTTCGTACCAGCTCAAAGACAGGCTACAGTTATCACCATCAGCTTCTCAGTTTGTCTTTTCGGTTGCCTTTTTTCCATGGAGCATAAAACCATTATATGGgtatgaatcttcatgaattacgaatgatgactcaaagtcttgattcaagtaggagctttgtagtaatgatatgtttttttttctcttttggtttttggtag
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - CATGGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GGAGCA