Sequence
atgc intronic sequence ATGC exonic sequenceCAAGGGAAAACACAGCATTGGTTGCTTGTTCTGGCTTTTGGCTCGTATGGTTCTCCAAATGCGTGGAACCATTCTCGCAGCTCAGAAATGGGATGTCATGgtaaactctagaaatactatcaggacttgtgtttctccaacaccagacaaagatcttgacttgtttctgttgtgtag
Basic information
species | Arabidopsis thaliana |
transcript | AT3G04770.2 |
intron # | 3 |
splice site | 5' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: AT3G04770.2 (Arabidopsis thaliana), 5'ss of exon 3
lower sequence: LOC_Os07g42450.1 (Oryza sativa), 5'ss of exon 3
CAAGGGAAAACACAGCATTGGTTGCTTGTTCTGGCTTTTGGCTCGTATGGTTCTCCAAATGCGTGGAACCATTCTCGCAGCTCAGAAATGGGATGTCATGgtaaactc-----tagaaatactatcaggactt--gtgttt---ctccaacac-cagacaaagatct-tgacttgtttctgttgtgtag
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CAAGGGGAAGCAGAGCATTGGTTGCCTATTCTGGCTTCTTGCCAGGATGGTTCTCCAGATGCGTGGTACAATTCTCCCAGGACACAAGTGGGATGTCATGgtatactcgcaatctaaactagtatcatgcctgtaatgtttggattctgaaatataatcactgatgtatgttgtttttcctttttgtag
upper sequence: AT3G04770.2 (Arabidopsis thaliana), 5'ss of exon 3
lower sequence: EFJ32709 (Selaginella moellendorffii), 5'ss of exon 3
CAAGGGAAAACACAGCATTGGTTGCTTGTTCTGGCTTTTGGCTCGTATGGTTCTCCAAATGCGTGGAACCATT-CTCGCAGCTCAGAAATGGGATGTCATGgtaaactctagaaatacta-tcaggacttgtgtttctccaacaccag---acaaagatcttgacttgtttctgttgtgtag--------------------------------------------
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CAAGGGGAAGCACAGCATTGGGTGCTTGTTTTGGATGCTCGCTCGGATGGTGCTCCAGATGCGCGGCACCATCGCTCCCAGC-CAGAAGTGGGATGTCATGgtaagatctattttcttcgctcatctcttgttcttgctggtggttttttcgctgtcacctacacttgttcgtgct-cgtggtttttgctgtaacttacacacttgtttggctattcctttcgtagMapped 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|86079746|gb|DR375503.1|DR375503EST: TTCTCCAAATGCGTGGAACCATTCTCGCAGCTCAGAAATGGGATGTCATG GTGGATCTGTTTTTCTACAGGGAGCCCGAAGAAGCAAAGCAAGAGGGTGAT
genomic: TTCTCCAAATGCGTGGAACCATTCTCGCAGCTCAGAAATGGGATGTCATGgtaaactcta ... tgttgtgtagGTGGATCTGTTTTTCTACAGGGAGCCCGAAGAAGCAAAGCAAGAGGGTGAT
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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
CAAGGGAAAACACAGCATTGGTTGCTTGTTCTGGCTTTTGGCTCGTATGGTTCTCCAAATGCGTGGAACCATTCTCGCAGCTCAGAAATGGGATGTCATGgtaaactctagaaatactatcaggacttgtgtttctccaacaccagacaaagatcttgacttgtttctgttgtgtag
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GCAGCT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - CAGCTC
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGCTCA