Sequence
atgc intronic sequence ATGC exonic sequenceATGGGCATAACGAGGCGGATTTTGGAATGTCGTGGTGCGCAGGATTTGGAGAATCTTTCTACAATGCCTATTTCAAGgttctcttccttttctcacagtttctgtatcaactaaaatcaagtttaaaggttgttttgtttcattgctccctcaag
Basic information
species | Arabidopsis thaliana |
transcript | AT3G61080.1 |
intron # | 8 |
splice site | 5' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: AT3G61080.1 (Arabidopsis thaliana), 5'ss of exon 8
lower sequence: Vv15s0048g01810.t01 (Vitis vinifera), 5'ss of exon 8
ATGGGCATAACGAGGCGGATTTTGGAATGTCGTGGTGCGCAGGATTTGGAGAATCTTTCTACAATGCCTATTTCAAGgttctcttccttttctcacagtttctgtatcaactaaaatcaagtttaaaggttgttttgtttcattgctccctcaag-------------------------------------------------------------------------
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ATGGACATAATGAGGCAGAATTCGGAATGTCATGGTGTGCTGGCTTTGGAGGATCTTTCTACAATGCTTATTTTGAGgtatggtcatgatatctaaacaatcataagttagaaagatgaaaa--gaaagtcatctattgctaatccaaactccaaaccaacctgtcgattgtgggattgttagatggtttcttttgggagtaatttgttatgaaattttataatgtag
upper sequence: AT3G61080.1 (Arabidopsis thaliana), 5'ss of exon 8
lower sequence: PP1S83_158V6.1 (Physcomitrella patens), 5'ss of exon 9
ATGGGCATAACGAGGCGGATTTTGGAATGTCGTGGTGCGCAGGATTTGGAGAATCTTTCTACAATGCCTATTTCAAGgttc----tcttccttttctcacagtttctgtatcaactaaaatcaagtttaa-aggttgttttgtttcattgctccctcaag-------------------
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ATGGGCACAATGAAGCGGAGTTTGGAATGTCATGGTGCGCAGGGTTTGGCCCCTCTTTCTATGACGCTTACTTCAAGgtacaaagttgaatgcatctacctaaatctgtaggaggtagaa--gagtttgttacgccgtgctgtagttcacttctgttgagacaccacatgatcaaagct
upper sequence: AT3G61080.1 (Arabidopsis thaliana), 5'ss of exon 8
lower sequence: EFJ10139 (Selaginella moellendorffii), 5'ss of exon 8
ATGGGCATAACGAGGCGGATTTTGGAATGTCGTGGTGCGCAGGATTTGGAGAATCTTTCTACAATGCCTATTTCAAGgttctcttccttttctcacagtttctgtatcaactaaaatcaagtttaaaggttgttttgtttcattgctccctcaag
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ATGGTCACAACGAGGCGGAATTTGGAATGTCGTGGTGTGCGAGTTTCAACTCAAGCTTCTACGATGCATACTTCAAAgtaaaaagtcgtcattcccttcatcgttgctgaggagaaagcgtgttaaa--cagtctcgtt-cttttcttttccag-
upper sequence: AT3G61080.1 (Arabidopsis thaliana), 5'ss of exon 8
lower sequence: EFJ34520 (Selaginella moellendorffii), 5'ss of exon 8
ATGGGCATAACGAGGCGGATTTTGGAATGTCGTGGTGCGCAGGATTTGGAGAATCTTTCTACAATGCCTATTTCAAGgttctcttccttttctcacagtttctgtatcaactaaaatcaagtttaaaggttgttttgtttcattgctccctcaag
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ATGGTCACAACGAGGCGGAATTTGGAATGTCGTGGTGTGCGAGTTTCAACTCAAGCTTCTACGATGCATACTTCAAAgtaaaaagtcgtcattcccttcatcgttgctgaggagaaagcgtgttaaa--cagtcttgtt-ctttacttttccag-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|125271393|gb|EL285478.1|EL285478EST: TGTCGTGGTGCGCAGGATTTGGAGAATCTTTCTACAATGCCTATTTCAAG GTAATGCCAAAACAAGCGGGATATGAGAAGAGGAGGGAT
genomic: TGTCGTGGTGCGCAGGATTTGGAGAATCTTTCTACAATGCCTATTTCAAGgttctcttcc ... ctccctcaagGTAATGCCAAAACAAGCGGGATATGAGAAGAGGAGGGAT
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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
ATGGGCATAACGAGGCGGATTTTGGAATGTCGTGGTGCGCAGGATTTGGAGAATCTTTCTACAATGCCTATTTCAAGgttctcttccttttctcacagtttctgtatcaactaaaatcaagtttaaaggttgttttgtttcattgctccctcaag
- - - - - - - - - - - - - - - - - - - - - - TTGGAG
- - - - - - - - - - - - - - - - - - - - - - - TGGAGA
- - - - - - - - - - - - - - - - - - - - - - - GGAGAA