Sequence
atgc intronic sequence ATGC exonic sequenceTGTGGATCAGACTTCTCACATGCTCACTGTTGCAACACGTGAGTTATTTAGTGAGCTTGATAAAAGTGTCAAGGCTGTTGCGCCTATGCCGTTCTGGATGgttagtttttgttcacataatgcttaataatatttttttgcttcttttacttatacttgttagttctcatcgttaatttccaaacttctcattataagatttgggagtataaagttctctctcatgtcttataccaacttttgttcttgatgcag
Basic information
species | Arabidopsis thaliana |
transcript | AT3G21280.1 |
intron # | 6 |
splice site | 5' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: AT3G21280.1 (Arabidopsis thaliana), 5'ss of exon 6
lower sequence: GLYMA07G01480.1 (Glycine max), 5'ss of exon 6
TGTGGATCAGACTTCTCACATGCTCACTGTTGCAACACGTGAGTTATTTAGTGAGCTTGATAAAAGTGTCAAGGCTGTTGCGCCTATGCCGTTCTGGATGgttagtttttgttcacataatgcttaata-atatttttttgcttcttttacttatacttgttagttctcatcgttaatttccaaacttctcattataagatttgggagtataaagttctctctcatgtcttataccaacttttgttcttgatgcag
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TGTTGATCAATCTTCTCATCTGTTGACCATTGCAACCCGTGACTTGTTCAGCGAGCTTGATAAAAGTGTCAAGCCTGTGGCGCCAATGCAATTTTGGATGgtacatt-------atatagtgttcattatataactaatta-----tttgtttatctttgttaattt--gttgtttatatg-atgctgtatgtt------tttgggtgggaagactttcat-----------------------------------
upper sequence: AT3G21280.1 (Arabidopsis thaliana), 5'ss of exon 6
lower sequence: Vv09s0002g02500.t01 (Vitis vinifera), 5'ss of exon 6
TGTGGATCAGACTTCTCACATGCTCACTGTTGCAACACGTGAGTTATTTAGTGAGCTTGATAAAAGTGTCAAGGCTGTTGCGCCTATGCCGTTCTGGATGgttagtttttgttcacataatgcttaataatatttttttgcttcttttacttatacttgttagttctcatcgttaatttccaaacttctcattataagatttgggagtataaagttctctctcatgtcttataccaacttttgttcttgatgcag
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TTTGGATCAGCCTTCTCATATGTTGACTTGTGCAACACGTGATTTATTTAGTGAGCTTGATAAAAATGTCAAGCCTGTGGCGCCCATGCAGTTTTGGATGgtttgttctcttgt--------ttcactgttttatttataattaatttgct-gcacaactcaatatttctcattcata---aaactggtaagtctg-----taggagtacaatgttc--------------------------------------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|86069923|gb|DR365680.1|DR365680EST: GTGAGCTTGATAAAAGTGTCAAGGCTGTTGCGCCTATGCCGTTCTGGATG GTGTTACNNNNNNN-TATCCTCAGTTTGCTCAGTTGCATAACGGAAATCAC
genomic: GTGAGCTTGATAAAAGTGTCAAGGCTGTTGCGCCTATGCCGTTCTGGATGgttagttttt ... cttgatgcagGTGTTACAAAAAAAATATCCTCAGTTTGCTCAGTTGCATAACGGAAATCAC
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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
TGTGGATCAGACTTCTCACATGCTCACTGTTGCAACACGTGAGTTATTTAGTGAGCTTGATAAAAGTGTCAAGGCTGTTGCGCCTATGCCGTTCTGGATGgttagtttttgttcacataatgcttaataatatttttttgcttcttttacttatacttgttagttctcatcgttaatttccaaacttctcattataagatttgggagtataaagttctctctcatgtcttataccaacttttgttcttgatgcag
- - - - - - - - - - - - - - - - - - - - - - - - - - GAGCTT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GCTGTT