Sequence
atgc intronic sequence ATGC exonic sequenceTGAAGACGAAGACGACGATGAATTCATACAAGTCCATGCTAATAATTCCTCTGCTGCTTCGCCTGAGAGATGGGATGTTTTGGGTCTCGGCCAAGCCATGgtgagtttttgtttcctataataaatcattctagcttctagcttctagcttcttcttatccttgaagccaccaaatggttgaaatatgtgaatctggatcctaaaaatacttacttggttattgatgatgtgttttatgttttag
Basic information
species | Arabidopsis thaliana |
transcript | AT4G27600.1 |
intron # | 1 |
splice site | 5' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: AT4G27600.1 (Arabidopsis thaliana), 5'ss of exon 1
lower sequence: GLYMA12G01920.1 (Glycine max), 5'ss of exon 1
TGAAGACGAA----GACGACGATGAATTCATACAAGTCCATGCTAATAATTCCTCTGCTGCTTCGCCTGAGAGATGGGATGTTTTGGGTCTCGGCCAAGCCATGgtgagtttttgtttcctataataaatcattctagcttcta-gcttctagcttcttcttatccttgaagccaccaaatggttgaaatatgtgaatctggatcctaaaaatacttacttggttattgatgatgtgttttatgttttag
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-GAGGGCCAGTTACGACGACGACGAAGACGAAGAAGAAGGAGCTCTTAGCTCCTTAGTTTTT---CCTGAAAGATGGGATGTATTGGGTCTCGGTCAAGCCATGgtaattcattcccttttcc--ttagccaatattttttctgtgtttcgaattgctatgcataagtgaaga----aaacttgtacaccctgtatgcattgctcttgtt----------------------------------------
upper sequence: AT4G27600.1 (Arabidopsis thaliana), 5'ss of exon 1
lower sequence: GLYMA11G11620.1 (Glycine max), 5'ss of exon 1
TGAAGACGAAG-ACGACGATGAATTCATACAAGTCCATGCTAATAATTCCTCTGCTGCTTCGCCTGAGAGATGGGATGTTTTGGGTCTCGGCCAAGCCATGgtgagtttttgtttcctataataaat-cattctagct-tctagcttcta-gcttcttcttatccttgaagccaccaaatggttgaaatatgtgaatctggatcctaaaaatacttacttggttattgatgatgtgttttatgttttag
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-GAGGACCAGTTACGACGACGACGAAGAAGAAGAAGAGGAATTTCTTGGCTCCTTAGTTTTGCCTGAAAGATGGGATGTACTGGGTCTCGGTCAAGCCATGgtaa-ttctaattcttcatcatgtttgctttctttttgttttgcttttatgaatcttattattttggaaaattcgtcttag-------------------------------------------------------------------
upper sequence: AT4G27600.1 (Arabidopsis thaliana), 5'ss of exon 1
lower sequence: Vv16s0039g01580.t01 (Vitis vinifera), 5'ss of exon 1
---TGAAGACGAAGACGACGATGAATTCATACAAGTCCATGCTAATAATTCCTCTGCTGCTTCGCCTGAGAGATGGGATGTTTTGGGTCTCGGCCAAGCCATGgtgagtttttgtttcctataataaatcattctagcttctagcttctagcttcttcttatccttgaagccaccaaatggttgaaatatgtgaatctggatcctaaaaatacttacttggttattgatgatgtgttttatgttttag
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GGATGAGGATGAGGATGGAGAAGAAGTAGCAGAGAAGGAAGAGATGGGTGCTTCTGTGGT---GCCTGAGAGATGGGATGTGTTGGGTCTTGGCCAGGCTATGgtaa--ttttattt-------tattttatttcagttttctgttt---gattgctgagaaaatgtaggaaagaagacatctaagttata-aatttcgggtcttctttttgcttt--------------------------------Mapped 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|124897052|gb|EH973266.1|EH973266EST: CTGCTGCTTCGCCTGAGAGATGGGATGTTTTGGGTCTCGGCCAAGCCATG GTAGATTTCTCTGGAGTTG
genomic: CTGCTGCTTCGCCTGAGAGATGGGATGTTTTGGGTCTCGGCCAAGCCATGgtgagttttt ... tatgttttagGTAGATTTCTCTGGAGTTG
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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
TGAAGACGAAGACGACGATGAATTCATACAAGTCCATGCTAATAATTCCTCTGCTGCTTCGCCTGAGAGATGGGATGTTTTGGGTCTCGGCCAAGCCATGgtgagtttttgtttcctataataaatcattctagcttctagcttctagcttcttcttatccttgaagccaccaaatggttgaaatatgtgaatctggatcctaaaaatacttacttggttattgatgatgtgttttatgttttag
- - - - - - - - - - - - - - - - - - - - - - - - - TGCTGC
- - - - - - - - - - - - - - - - - - - - - - - - - - GCTGCT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GAGATG