Sequence
atgc intronic sequence ATGC exonic sequenceCTTACATATCCAAGGTTAAGCCAGTACTGATGGTTGACACGGTTCAAGAGATTGCGATTTATATTCATAGGTTTCATAACCTTGATCTTTTCCAGCAAGGgtatggaacatatttttatatatatatatctttatacttcaacattgttttgaaagcttctgactcttttaacttcatcag
Basic information
species | Arabidopsis thaliana |
transcript | AT1G58350.2 |
intron # | 1 |
splice site | 5' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: AT1G58350.3 (Arabidopsis thaliana), 5'ss of exon 2
lower sequence: GLYMA17G26570.1 (Glycine max), 5'ss of exon 1
CTTACATATCCAAGGTTAAGCCAGTACTGATGGTTGACACGGTTCAAGAGATTGCGATTTATATTCATAGGTTTCATAACCTTGATCTTTTCCAGCAAGGgtatggaacatatttttatatatatatatctttatacttcaacattgttttgaaagctt--ctgac-----tcttttaacttcatcag
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CACACTCTCTTAAGGTCAGAGCGGTGGCTATGTTTGAAGCTGTACAGGAGATTGCCATATACATTCATAGGTTTCACAATCTTGACCTTTTTCAGCAGGGgtatacacca-atctctattttctttccagtttttgttatgaagtttccttggttacctaattgacatgcatattttgggttatgcag
upper sequence: AT1G58350.3 (Arabidopsis thaliana), 5'ss of exon 2
lower sequence: Vv12s0055g00430.t01 (Vitis vinifera), 5'ss of exon 1
CTTACATATCCAAGGTTAAGCCAG-TACTG--ATGGTTGACACGGTTCAAGAGATTGCGATTTATATTCATAGGTTTCATAACCTTGATCTTTTCCAGCAAGGgtatggaacatatttt-tatatatatatatctttatacttcaacattgttttgaaagcttctgact--cttttaacttcatcag----------------
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---CCAATGCGAAGCCCAAGCCGCCTCCTGCTATGTTGGAGACTGTACAAGAGATTGCAATCTACATTCATAGGTTCCACAACCTCGACCTTTTTCAGCAAGGgtaaaacatcttcattgcttttgcttttgttctaaaacggctccttttcttttagtgtttttatttattttttaaatgagataggatttcaggtgatttcMapped 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|116429649|gb|EG472241.1|EG472241EST: ATTGCGATTTATATTCATAGGTTTCATAACCTTGATCTTTTCCAGCAAGG ATGGTATCAAATCAAAATCACCATGAGATGGGAGGATGGTGATAACGTAAC
genomic: ATTGCGATTTATATTCATAGGTTTCATAACCTTGATCTTTTCCAGCAAGGgtatggaaca ... acttcatcagATGGTATCAAATCAAAATCACCATGAGATGGGAGGATGGTGATAACGTAAC
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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
CTTACATATCCAAGGTTAAGCCAGTACTGATGGTTGACACGGTTCAAGAGATTGCGATTTATATTCATAGGTTTCATAACCTTGATCTTTTCCAGCAAGGgtatggaacatatttttatatatatatatctttatacttcaacattgttttgaaagcttctgactcttttaacttcatcag
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGCAAG