Sequence
atgc intronic sequence ATGC exonic sequenceTCATCATCTAGTGTAGCAACATCTAAACAACGTATGCGTTGGACACCAGAACTTCACGAGGCATTCGTTGAAGCTGTTAATCAGCTTGGTGGTAGTGAACgtgcgtaagctttctccttctattgttcctgaaaataattgctcaaggatgttaaccgtacactgattcttctataatttccatcatag
Basic information
species | Arabidopsis thaliana |
transcript | AT5G29000.3 |
intron # | 3 |
splice site | 5' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: AT5G29000.3 (Arabidopsis thaliana), 5'ss of exon 3
lower sequence: GLYMA19G43690.2 (Glycine max), 5'ss of exon 3
TCATCATCTAGTGTAGCAACATCTAAACAACGTATGCGTTGGACACCAGAACTTCACGAGGCATTCGTTGAAGCTGTTAATCAGCTTGGTGGTAGTGAACgtgcgtaagctttctccttctattgttcctgaaaataattgctcaaggatgttaaccgtacactgattct-tctataatttccatcatag
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TCAGCATCAACTGCACCGCAGACTAAGCCTAGAATGCGTTGGACTCCAGAACTTCACGAGGCCTTTGTGGAAGCAGTTAATCAGCTTGGTGGTAGTGATAgtatgt-----ttccgtctccataatctc---ataccttacctctggaatttttcttgtcatctcatgatgttaacaacttaacctgcag
upper sequence: AT5G29000.3 (Arabidopsis thaliana), 5'ss of exon 3
lower sequence: GLYMA03G41040.1 (Glycine max), 5'ss of exon 3
TCATCATCTAGTGTAGCAACATCTAAACAACGTATGCGTTGGACACCAGAACTTCACGAGGCATTCGTTGAAGCTGTTAATCAGCTTGGTGGTAGTGAACgtgcgtaagctttctccttctattgttcctgaaaataattgctcaaggatgttaaccgtacactgattcttcta-taatttccatcatag
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TCAGCATCAACTGCATCGCAGACTAAGGCTAGAATGCGTTGGACTCCAGAACTTCACGAGGCCTTTGTGGAAGCAGTTAATCACCTTGGTGGTAGTGAGAgtatgtttacgtctccataatcttatacttttttaccttacttctagaatttttcttgtcatctcatgatggtaacaacttaacacgcag
upper sequence: AT5G29000.3 (Arabidopsis thaliana), 5'ss of exon 3
lower sequence: Vv14s0036g01380.t01 (Vitis vinifera), 5'ss of exon 2
TCATCATCTAGTGTAGCAACATCTAAACAACGTATGCGTTGGACACCAGAACTTCACGAGGCATTCGTTGAAGCTGTTAATCAGCTTGGTGGTAGTGAACgtgcgtaa-gctttct----ccttctattgttcctgaaaataattgctcaagga-tgttaaccgt-acactg-attcttctataatttcca-tcatag
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TCTTTGTCCCCTGCACCCTCATCCAAGCCTCGCATGCGCTGGACACCAGAAATGCATGAGGCCTTTGTGGAGGCTGTCAAACAGCTTGGTGGCAGTGAACgtatgtagcactatcagagatattctcttcttgatgtgattaggctctaaggaagcatgggccgtcgttttgtgttcacttttggttttaacttacagMapped 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|86085768|gb|DR381527.1|DR381527EST: ACTTCACGAGGCATTCGTTGAAGCTGTTAATCAGCTTGGTGGTAGTGAAC GAGCCACCCCTAAGGCTGTTTTGAAGCTCTTGAATAACCCTGGCTTGACCA
genomic: ACTTCACGAGGCATTCGTTGAAGCTGTTAATCAGCTTGGTGGTAGTGAACgtgcgtaagc ... tccatcatagGAGCCACCCCTAAGGCTGTTTTGAAGCTCTTGAATAACCCTGGCTTGACCA
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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
TCATCATCTAGTGTAGCAACATCTAAACAACGTATGCGTTGGACACCAGAACTTCACGAGGCATTCGTTGAAGCTGTTAATCAGCTTGGTGGTAGTGAACgtgcgtaagctttctccttctattgttcctgaaaataattgctcaaggatgttaaccgtacactgattcttctataatttccatcatag
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TTGAAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TGAAGC
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGCTG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GCTGTT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TCAGCT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TGGTGG