Sequence
atgc intronic sequence ATGC exonic sequenceATAGTGGTGCTGATATACACGTGATAGTGAAAATTGAGAGTGCAGACTCCATACCTAACTTGCACTCCATTATCACAGCATCAGATGGGgtgattttttctgtcaaccttgtctattttgttcttctgacttttatatgtcttacagtatgtaatctccttatgtgagagcaactgattggatgttgttttgtgaaacaataaatatatcatatggttggaatggctcttgtgcatgtgattgtctaattagatttgtgtatgtcttacag
Basic information
species | Arabidopsis thaliana |
transcript | AT5G52920.1 |
intron # | 6 |
splice site | 5' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: AT5G52920.1 (Arabidopsis thaliana), 5'ss of exon 6
lower sequence: GRMZM2G152686_T01 (Zea mays), 5'ss of exon 6
ATAGTGGTGCTGATATACACGTGATAGTGAAAATTGAGAGTGCAGACTCCATACCTAACTTGCACTCCATTATCACAGCATCAGATGGGgtgat--tttttctgtcaaccttgtctattttgttcttctgacttttatatgtcttacagtatgtaatctccttatgtgagagcaactga-ttggatgttgttttgtgaaacaataaatatatcatatggttggaatggctcttgtgcatgtgattgtctaattagatttgtgtatgtcttacag
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GTTGCAATGCTGACATACATGTTATCGTAAAAATAGAAAGTGCAGACTCCATCCCCAACTTACATTCAATCATCACAGCATCTGATGGGgtaaaaaatatattatcttaattatatgctttggtctagtgaaatgc-catcaaaaggtttatctattatctttgcatgaatgaacttgagttgtatggga------------------------------------------------------------------------------------
upper sequence: AT5G52920.1 (Arabidopsis thaliana), 5'ss of exon 6
lower sequence: GLYMA20G30430.1 (Glycine max), 5'ss of exon 6
ATAGTGGTGCTGATATACACGTGATAGTGAAAATTGAGAGTGCAGACTCCATACCTAACTTGCACTCCATTATCACAGCATCAGATGGGgtgatt-ttttctgtcaaccttgtctattttgttcttctgacttttatatgtcttacagtatgtaatctccttatgtgagagcaactga----ttggatgt------tgttttgtgaaacaataaatatatcatatggttggaatggctcttgtgcatgtgattgtctaattagatttgtgtatgtcttacag---------
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GCTGTGATGCTGATATACACGTCATTGTAAAAATTGAAAGTGCAGACTCTATACCAAACTTGCATTCAATTATTACAGCGTCTGATGGGgtgctaatctaatcctcacgttatttactttatagttactgcctgattctggaaaatagggatgatttagcccatattataaaaacagaagcctttggtactgagtgtgttttgtttagagatcg-tggattaagtttttgg---ggcacttgtttgc-tgattgttgatgttgaactgtctactttttccatcctgtttag
upper sequence: AT5G52920.1 (Arabidopsis thaliana), 5'ss of exon 6
lower sequence: GLYMA16G28980.1 (Glycine max), 5'ss of exon 6
ATAGTGGTGCTGATATACACGTGATAGTGAAAATTGAGAGTGCAGACTCCATACCTAACTTGCACTCCATTATCACAGCATCAGATGGGgtgattttttctgtcaaccttgtctattttgttcttctgacttttatatgtcttacagtatgtaatctccttatgtgagagcaactgattggatgttgttttgtgaaacaataaatatatcatatggttggaatggctcttgtgcatgtgattgtctaattagatttgtgtatgtcttacag
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GCTGCGGTGCTGATATACATGTCATCGTAAAAATTGAAAGTGCAGACTCTATACCAAATTTGCATTCAATTATCACTGCATCTGATGGGgtgctaatct-----aatcct---tgcattatttctttatgcttta-gtgttgcat-gtatattgcttgtggttatgaatgatagagattgtggactatttc-tgtactgattgctg----atac---tgacctgtctatttttaccttttttgtttag-----------------------
upper sequence: AT5G52920.1 (Arabidopsis thaliana), 5'ss of exon 6
lower sequence: GLYMA10G37210.1 (Glycine max), 5'ss of exon 6
ATAGTGGTGCTGATATACACGTGATAGTGAAAATTGAGAGTGCAGACTCCATACCTAACTTGCACTCCATTATCACAGCATCAGATGGGgtgattttttctgtcaaccttgtctattttgttcttctgacttttatatgtcttacagtatgtaatctccttatgtgagagcaactgattggatgttgttttgtgaaacaataaatatatcatatggttggaatggctcttgtgcatgtgattgtctaattagatttgtgtatgtcttacag
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GCTGTGATGCTGATATACATGTCATTGTAAAAATTGAAAGTGCAGACTCTATACCAAACTTGCATTCAATTATTACAGCGTCTGATGGGgtgct----------aatcttaatccttatgttatttc----cttatag---ttactgcctg-attctttctaaaaggga-----tgatttagc-ccattttttaaaaacagaaatctttgata----------------------------------------------------------
upper sequence: AT5G52920.1 (Arabidopsis thaliana), 5'ss of exon 6
lower sequence: GLYMA09G23150.1 (Glycine max), 5'ss of exon 6
ATAGTGGTGCTGATATACACGTGATAGTGAAAATTGAGAGTGCAGACTCCATACCTAACTTGCACTCCATTATCACAGCATCAGATGGGgtgattttttctgtcaaccttgtctattttgttcttctgacttttatatgtcttacagtatgtaatctccttatgtgagagcaactgattggatgttgttttgtgaaacaataaatatatcatatggttggaatggctcttgtgcatgtgattgtctaattagatttgtgtatgtcttacag
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GCTGTGGTGCTGATATACATGTCATCGTAAAAATCGAAAGTGCAGACTCTATACCAAATTTGCATTCAATTATCACTGCGTCTGATGGGgtgctaatct-----aatcct---tgcattatttctttatgctttac------tgttgcatgtattttgctt--gtggttatgagtcataaagt------ttgtagagtatttc-tgtaccgattgcttatagtgacctgtctatttttacccttttgtttag-------------------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|116479876|gb|EG522468.1|EG522468EST: GTGCAGACTCCATACCTAACTTGCACTCCATTATCACAGCATCAGATGGG GCAATGGTTGCAAGAGGTGATCTTGGTGCAGAGCTTCCAATTGAAGAAGTC
genomic: GTGCAGACTCCATACCTAACTTGCACTCCATTATCACAGCATCAGATGGGgtgatttttt ... tgtcttacagGCAATGGTTGCAAGAGGTGATCTTGGTGCAGAGCTTCCAATTGAAGAAGTC
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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
ATAGTGGTGCTGATATACACGTGATAGTGAAAATTGAGAGTGCAGACTCCATACCTAACTTGCACTCCATTATCACAGCATCAGATGGGgtgattttttctgtcaaccttgtctattttgttcttctgacttttatatgtcttacagtatgtaatctccttatgtgagagcaactgattggatgttgttttgtgaaacaataaatatatcatatggttggaatggctcttgtgcatgtgattgtctaattagatttgtgtatgtcttacag
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - CAGATG