Sequence
atgc intronic sequence ATGC exonic sequenceCTCAGAGTCATGTGCATAGAATGTATTTTATGGGTCCTAATACATTCAGTGAACCGTGGCATCTCTCACACATTCCCCCGGAGGAGATTAAAGAGATAGTgtaagttgtttgttattttatttcaagctgatttaggaatgtttctcattgttttgtctatagatacttaataagtggccttggttctgaactatttttatattggttttgggttttttag
Basic information
species | Arabidopsis thaliana |
transcript | AT5G11700.1 |
intron # | 15 |
splice site | 5' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: AT5G11700.1 (Arabidopsis thaliana), 5'ss of exon 15
lower sequence: LOC_Os05g09360.1 (Oryza sativa), 5'ss of exon 13
CTCAGAGTCATGTGCATAGAATGTATTTTATGGGTCCTAATACATTCAGTGAACCGTGGCATCTCTCACACATTCCCCCGGAGGAGATTAAAGAGATAGTgtaagttg-tttgttattt--tatttcaagctgatttaggaatgtttctcattgttttgtctatagatacttaataagtggccttggttctgaactatttttatattggttttgggttttttag---------------------------------------------------
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CTCACTGTCATGTGCACAGGATGTATTTCATGGGTCCCAACACCTTCAGTGAACCTTGGCATCTACCACACACCCCACCTGAGCAGATTTCTGAGATTGTgtacgtagatctgtccacaagtaaatcaagattatttttgaacaacatgcatt---cagcctttgggctcttt-----tgtcattcttttttccttatctttac--tggttttgctttttttgccacaaattttacctgtctcatttaagattatgtttatcgtatttttgttag
upper sequence: AT5G11700.1 (Arabidopsis thaliana), 5'ss of exon 15
lower sequence: GRMZM2G412234_T01 (Zea mays), 5'ss of exon 5
CTCAGAGTCATGTGCATAGAATGTATTTTATGGGTCCTAATACATTCAGTGAACCGTGGCATCTCTCACACATTCCCCCGGAGGAGATTAAAGAGATAGTgtaagt-tgtttgttattttatttcaagctgatttaggaatgtttctcattgttttgtctata-gatacttaataagtggc----cttggttctgaactatttttatattggt------tttgggttttttag------------------------------------------------------------
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CACAAGGTCATGTACACAGGATGTATTTCATGGGTCCCAACACCTTCAGTGAACCTTGGCATCTCCCACACAGTCCGCCAGAACAAATAACAGAGATCGTgtatgtgtgcttcttcacaaatcacaagtgaatctagatatattcaattggatccaacctttgtggtccttttcttgtaccacccttaagctccgagactcttttgagccaactaaccatttaaatctgcctgtagggtactatcagaaatacttcaaatggtgttctaattttgctttctcttcgttttcag
upper sequence: AT5G11700.1 (Arabidopsis thaliana), 5'ss of exon 15
lower sequence: GRMZM2G350818_T02 (Zea mays), 5'ss of exon 8
CTCAGAGTCATGTGCATAGAATGTATTTTATGGGTCCTAATACATTCAGTGAACCGTGGCATCTCTCACACATTCCCCCGGAGGAGATTAAAGAGATAGTgtaagttgtttgttattttatttcaagctgatttaggaatgtttctcattgttttgtctatagatacttaataagtggccttggttctgaactatttttatattggttttgggttttttag
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CTCACTGTCATGTGCACAGGATGTATTTCATGGGCCCAAACACCTTCAGTGAACCTTGGCATCTCCCACACACCCCGCCAGAGCAGATTTCAGAGATTGTgtatgtactcccatcctttgtt----gtt--tgtatgtccattatttattatttttttt-----tgtctccaaaattttcctgatccttgaatgtcctcctgtctctatcc--tttttcag
upper sequence: AT5G11700.1 (Arabidopsis thaliana), 5'ss of exon 15
lower sequence: GLYMA06G09360.1 (Glycine max), 5'ss of exon 15
CTCAGAGTCATGTGCATAGAATGTATTTTATGGGTCCTAATACATTCAGTGAACCGTGGCATCTCTCACACATTCCCCCGGAGGAGATTAAAGAGATAGTgtaag--------------ttgtttgttatttta--tttca-agctgatttaggaatgtttctcattgttttgtctatagatacttaataagtggccttggttctgaactatttttatattggttttgggttttttag
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CCCAGAGTCATGTTCACAGAATGTACTTTATGGGACCTAATACTTTCAGTGAGCCCTGGCATCTGCCACATACACCTTCAGAGCAAATAAAGGATGTTGTgtaagcaaagacatttttctggttgatcattataaatcccatagttgaaatttgaggatgtcagttttttttatttgttagt-tatgttatttggttatgatattgagatggagatcttccaacacttgacatggcag
upper sequence: AT5G11700.1 (Arabidopsis thaliana), 5'ss of exon 15
lower sequence: GLYMA04G09230.1 (Glycine max), 5'ss of exon 15
CTCAGAGTCATGTGCATAGAATGTATTTTATGGGTCCTAATACATTCAGTGAACCGTGGCATCTCTCACACATTCCCCCGGAGGAGATTAAAGAGATAGTgtaag--------ttgtttgttattttatttcaagc----tgatttagg---aatgtttctcattgttttgtctatagatacttaataagtggccttggttctgaactatttttatattggttttgggttttttag
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CCCAGAGTCATGTTCACAGAATGTACTTTATGGGACCTAATACTTTCAGTGAGCCCTGGCATCTGCCACATACACCTTCAGAGCAAATAAAGGATGTTGTgtaagaaagacatttttctgtttgatcattataaatcccatggtctaaatttgaggatgtcaatttttttatttgttaattatatttgcttggttatgattttgtgatggatatcttcgaacatttgacatggcagMapped 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|86068464|gb|DR364221.1|DR364221EST: GAACCGTGGCATCTCTCACACATTCCCCCGGAGGAGATTAAAGAGATAGT ATATGAGGCTGCATTTAACACATTTGTCGACGAAATCAACTCTATAGCTGC
genomic: GAACCGTGGCATCTCTCACACATTCCCCCGGAGGAGATTAAAGAGATAGTgtaagttgtt ... ggttttttagATATGAGGCTGCATTTAACACATTTGTCGACGAAATCAACTCTATAGCTGC
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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
CTCAGAGTCATGTGCATAGAATGTATTTTATGGGTCCTAATACATTCAGTGAACCGTGGCATCTCTCACACATTCCCCCGGAGGAGATTAAAGAGATAGTgtaagttgtttgttattttatttcaagctgatttaggaatgtttctcattgttttgtctatagatacttaataagtggccttggttctgaactatttttatattggttttgggttttttag
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GGAGGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GAGGAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGGAGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GGAGAT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGAGA