Sequence
atgc intronic sequence ATGC exonic sequenceCGGAGGCGCTGCTCCTCGCACTAGCGTCGTCGGTCGTGTCTTCACTGCTAATGAATCTCCTCCTGATCAGAAGATTCCTTTTCACCACGAGATGGCTCAGgtattgatcaaaatcagatttgggtttatgtgaatttgattttttacatctaaagttttgagctttattgaatttgattgatggtgtttgttag
Basic information
species | Arabidopsis thaliana |
transcript | AT3G21360.1 |
intron # | 1 |
splice site | 5' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: AT3G21360.1 (Arabidopsis thaliana), 5'ss of exon 1
lower sequence: GRMZM2G165769_T01 (Zea mays), 5'ss of exon 1
CGGAGGCGCTGCTCCTCGCACTAGCGTCGTCGGTCGTGTCTTCACTGCTAATGAATCTCCTCCTGATCAGAAGATTCCTTTTCACCACGAGATGGCTCAGgta-ttgatca--aaatcagatttgggttta-tgtg-aatttgat--tttttacatctaaagttttgagctttattgaatttgattgatggtgtttgttag
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CGGCAGCGTCGCGCCGCGGACCAACGTCGTGGGCCGGGTGTTCACCGCCAACGACTCGCCGCCCGATCAGAAGATCCCCTTCCACCACGAGATGGCTCAGgtaatcgactgttgaaccatctccccctgcagtctgcagtctggtggcactggcacttggtctttgaaacattgcctttggtctttgaccgtatgtacct-
upper sequence: AT3G21360.1 (Arabidopsis thaliana), 5'ss of exon 1
lower sequence: Vv09s0002g03450.t01 (Vitis vinifera), 5'ss of exon 1
CGGAGGCGCTGCTCCTCGCACTAGCGTCGTCGGTCGTGTCTTCACTGCTAATGAATCTCCTCCTGATCAGAAGATTCCTTTTCACCACGAGATGGCTCAGgta---ttgatcaaaatcagatttgggtttatgtgaatttgattttttac-atctaaagttttgagctttattgaatttgattgatgg-tgtttgttag---------------------------------------------
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CGGCGGCGCGGCTCCCAGGACCAAAGTGGTGGGTCGGGTTTTCACGTCCAATGAGTCACCGCCGGATCAGAAGATCCCCTTTCACCACGAAATGGCTCAGgtgcgttttattttaa-caggtcatgatgaaggggatttttttttttttttaattatcttattttaatttttttcccgtaatttttggatatttggaatcccagatttggtcgattttgttgaagactctgggcttttctgcagMapped 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|19877794|gb|AU238625.1|AU238625EST: ATGAATCTCCTCCTGATCAGAAGATTCCTTTTCACCACGAGATGGCTCAG GTTCGTGAGTTTCCATCAAAGTTGTTCTTTTACTGTGAGATTGAGCCTAAG
genomic: ATGAATCTCCTCCTGATCAGAAGATTCCTTTTCACCACGAGATGGCTCAGgtattgatca ... tgtttgttagGTTCGTGAGTTTCCATCAAAGTTGTTCTTTTACTGTGAGATTGAGCCTAAG
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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
CGGAGGCGCTGCTCCTCGCACTAGCGTCGTCGGTCGTGTCTTCACTGCTAATGAATCTCCTCCTGATCAGAAGATTCCTTTTCACCACGAGATGGCTCAGgtattgatcaaaatcagatttgggtttatgtgaatttgattttttacatctaaagttttgagctttattgaatttgattgatggtgtttgttag
- - - - - - - - - - - - - - - - - - - - - - - - - - - - CTCCTC
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GAGATG