Sequence
atgc intronic sequence ATGC exonic sequenceCACTGGAAATCATCTCAAAGGGTCACGTCCACTTTTGACATTCTCATCCAATTTTGATAAAGATGCGCACTGGAAACTCTTGAAGGAGATGCTTACTCAGgttgttgccagattcatatccttggataatgtttttggtccattagttctcaagactttcacatcctaattagttttgttttgtttatctctcag
Basic information
species | Arabidopsis thaliana |
transcript | AT1G52930.1 |
intron # | 4 |
splice site | 5' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: AT1G52930.1 (Arabidopsis thaliana), 5'ss of exon 4
lower sequence: GLYMA02G12700.2 (Glycine max), 5'ss of exon 6
CACTGGAAATCATCTCAAAGGGTCACGTCCACTTTTGACATTCTCATCCAATTTTGATAAAGATGCGCACTGGAAACTCTTGAAGGAGATGCTTACTCAGgt-tgttgccagattcatatcct-tggataatgtttttg----gtccattagttctcaagactttcacatcctaattagt-tttgttttgtttatctctcag
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AACTGGAAATCAACTAAAAGGTTCTCGTCCTATTTTGACATTTTCAGCAAATTTTGAAAAAGATGCACATTGGAAACTGCTAAAGGAGATGTTGTTACAGgtatgtggttggtttcattcctagtaagtagtatttctgtattgtacatctagtttcatctgaaagaaagattaggaaatatctaatcagcatgttgatt--
upper sequence: AT1G52930.1 (Arabidopsis thaliana), 5'ss of exon 4
lower sequence: Vv07s0005g04550.t01 (Vitis vinifera), 5'ss of exon 4
CACTGGAAATCATCTCAAAGGGTCACGTCCACTTTTGACATTCTCATCCAATTTTGATAAAGATGCGCACTGGAAACTCTTGAAGGAGATGCTTACTCAGgttgttgccagattcatatccttggataatgtttttggtccattagttctcaagactttcacatcctaattagttt-tgttttgtttatctctcag--------
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TACTGGGAATCATCTAAAAGGATCACGTCCTCTTTTGACTTTCTCAACCAATTTTGATAAGGACCCCCACTGGAAACTTCTCAAGGAGATGATCACACAGgta--tatctatttcaattctctggtcaagcactaattctttttagctgttat--cgttcacagatggaagagtagatattgaatttatatgtagattataatcMapped 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|124884304|gb|EH963206.1|EH963206EST: TTTTGATAAAGATGCGCACTGGAAACTCTTGAAGGAGATGCTTACTCAG GTCTTCGGAATTCCTAAGGAACACAGGAAATC
genomic: TTTTGATAAAGATGCGCACTGGAAACTCTTGAAGGAGATGCTTACTCAGgttgttgcca ... tatctctcagGTCTTCGGAATTCCTAAGGAACACAGGAAATC
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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
CACTGGAAATCATCTCAAAGGGTCACGTCCACTTTTGACATTCTCATCCAATTTTGATAAAGATGCGCACTGGAAACTCTTGAAGGAGATGCTTACTCAGgttgttgccagattcatatccttggataatgtttttggtccattagttctcaagactttcacatcctaattagttttgttttgtttatctctcag
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGATG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TTGAAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGGAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGGAGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GGAGAT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GAGATG