Sequence
atgc intronic sequence ATGC exonic sequenceAGATGGTAACAGTTTTGTGTATAATAGTAGCATCAACGTTGCTGTTGCTGTTGCTATTGATGGTGGTTTGATCACTCCGGTGCTTCAGAACGCTGATAAGgttcttttcttttgtatgctttataagagattttgagtttactctgtattcaaaaccggtatcagtgggttgttctatcttttgtaaacag
Basic information
species | Arabidopsis thaliana |
transcript | AT1G34430.1 |
intron # | 2 |
splice site | 5' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: AT1G34430.1 (Arabidopsis thaliana), 5'ss of exon 2
lower sequence: GLYMA10G35960.2 (Glycine max), 5'ss of exon 3
AGATGGTAACAGTTTTGTGTATAATAGTAGCATCAACGTTGCTGTTGCTGTTGCTATTGATGGTGGTTTGATCACTCCGGTGCTTCAGAACGCTGATAAGgttcttttcttttgtatgctttataagagattttgagtttactctgtattcaaaaccggtatcagtgggttgttctatcttttgtaaacag-------------------------
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AGATGGTAATAGCTTTACATATAATAGCAGCATCAATATTGCTGTTGCTGTGGCTATAGATGGCGGATTGATTACACCAGTGCTTCAGGGTGCTGATAAGgtttaccaatactctaa----tttaagcagcttctaatct-ccccacctcctgcttttctaatataagatggttctttattgta-aaatggtatatttatttgatgtatattgtag
upper sequence: AT1G34430.1 (Arabidopsis thaliana), 5'ss of exon 2
lower sequence: GLYMA20G31630.1 (Glycine max), 5'ss of exon 3
AGATGGTAACAGTTTTGTGTATAATAGTAGCATCAACGTTGCTGTTGCTGTTGCTATTGATGGTGGTTTGATCACTCCGGTGCTTCAGAACGCTGATAAGgttcttttcttttgtatgctttataagagattttgagtttactctgtattcaaaaccggtatcagtgggttgttctatcttttgtaaacag---------------------
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AGATGGTAATAGCTTTACATATAATAGCAGCATCAATATTGCAGTTGCTGTGGCTATAGATGGTGGACTGATTACACCAGTGCTTCAGGGTGCTGATAAGgttttccaatactctag----tttaagcagcttctagtcc-ccccatctcccacttttctaatataagatggttctttattgta-aaatggtatatttgatgtatattgtagMapped 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|125240203|gb|EL254288.1|EL254288EST: TTGATGGTGGTTTGATCACTCCGGTGCTTCAGAACGCTGATAAG GTTGACATTTATTCGTTATCTAGAAAATGGAAAGAATTGGTTGATAAGG
genomic: TTGATGGTGGTTTGATCACTCCGGTGCTTCAGAACGCTGATAAGgttcttttct ... ttgtaaacagGTTGACATTTATTCGTTATCTAGAAAATGGAAAGAATTGGTTGATAAGG
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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
AGATGGTAACAGTTTTGTGTATAATAGTAGCATCAACGTTGCTGTTGCTGTTGCTATTGATGGTGGTTTGATCACTCCGGTGCTTCAGAACGCTGATAAGgttcttttcttttgtatgctttataagagattttgagtttactctgtattcaaaaccggtatcagtgggttgttctatcttttgtaaacag
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TGGTGG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GCTGAT