Sequence
atgc intronic sequence ATGC exonic sequenceCGCAAGCAGTGGAGCAGGTACTCCCGACCACTTTTCCGAGGTGTTTGAGAAGACAAACGCATCTGCCGCGCTTGCTGCCGGCATTTTCCACCGGAAAGAGgtaaccgtttttactcttgttaaaaccttttgcgtttatacctggtaacactattattctactattttgtataaag
Basic information
species | Arabidopsis thaliana |
transcript | AT4G26900.1 |
intron # | 18 |
splice site | 5' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: AT4G26900.1 (Arabidopsis thaliana), 5'ss of exon 18
lower sequence: LOC_Os03g15120.1 (Oryza sativa), 5'ss of exon 16
CGCAAGCAGTGGAGCAGGTACTCCCGACCACTTTTCCGAGGTGTTTGAGAAGACAAACGCATCTGCCGCGCTTGCTGCCGGCATTTTCCACCGGAAAGAGgtaa----ccgtttt-tactcttgttaaaaccttttgcgtttatacctggtaacactattattctactattttgtataaag-------------------
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TGCAAGCAGTGGTGCTGGTACTGTCGAACATTTTTCTGAGGTCTTTGAGAAAACAAATGCTTCTGCTGCCCTTGCTGCTGGCATTTTCCATCGGAAAGAGgtattgtcccgccttgtactttttattcagcatgctatgcctggagctctacatgataatcctttattccttttcttgcaagttctggaaaactttgacc
upper sequence: AT4G26900.1 (Arabidopsis thaliana), 5'ss of exon 18
lower sequence: GLYMA18G12920.1 (Glycine max), 5'ss of exon 19
CGCAAGCAGTGGAGCAGGTACTCCCGACCACTTTTCCGAGGTGTTTGAGAAGACAAACGCATCTGCCGCGCTTGCTGCCGGCATTTTCCACCGGAAAGAGgtaaccgtttttactcttgttaaaaccttttgcgtttatacctggtaacactattattctactattttgtataaag---------------------------
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CGCAAGTAGTGGTGCCGGTGCTCCTGAACACTTCTCTGAGGTGTTCTATAAAACAAATGCATCAGCAGCACTTGCTGCTGGCATTTTTCACAGGAAAGAGgta-ttacttctgtt-ttgttaatttctta-atgctgatgggaatgattttgatttgttaagtatgttctgttacggatcaattattgcattgatccattctc
upper sequence: AT4G26900.1 (Arabidopsis thaliana), 5'ss of exon 18
lower sequence: Vv19s0090g00810.t01 (Vitis vinifera), 5'ss of exon 17
CGCAAGCAGTGGAGCAGGTACTCCCGACCACTTTTCCGAGGTGTTTGAGAAGACAAACGCATCTGCCGCGCTTGCTGCCGGCATTTTCCACCGGAAAGAGgtaaccgtttttactcttgttaaaaccttttgcgtttatacctggtaacactattattctactattttgtataaag----------------------------
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TGCAAGTAGTGGTGCGGGTGTAGTTGAGCATTTCTCAGAGGTTTTCAAGAAAACAAATGCATCTGCTGCTCTTGCAGCTGGCATTTTCCACCGGAAGGAGgtacattcctgaagtcccttggaaaattgtta-atatatatatataagaaacagaattcaaatgctg---atgaagactattatcatcatcaattagaatctacMapped 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|19799372|gb|AU230662.1|AU230662EST: AGACAAACGCATCTGCCGCGCTTGCTGCCGGCATTTTCCACCGGAAAGAG GTACCAATCCAATCTGTGAAAGAGCACTTACAAGAGGAGCGCATAGAAGTC
genomic: AGACAAACGCATCTGCCGCGCTTGCTGCCGGCATTTTCCACCGGAAAGAGgtaaccgttt ... ttgtataaagGTACCAATCCAATCTGTGAAAGAGCACTTACAAGAGGAGCGCATAGAAGTC
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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
CGCAAGCAGTGGAGCAGGTACTCCCGACCACTTTTCCGAGGTGTTTGAGAAGACAAACGCATCTGCCGCGCTTGCTGCCGGCATTTTCCACCGGAAAGAGgtaaccgtttttactcttgttaaaaccttttgcgtttatacctggtaacactattattctactattttgtataaag
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TGCTGC