Sequence
atgc intronic sequence ATGC exonic sequenceGTATACTTCTAAGATGCTCCTAGCTGCTATTGATGAGTACTGTAAAGGAACATATGATTTTCTTTATTTGCCAATTGACTTCAAGgtatgcaggcctcttacctgttttttcatctaatggagtctaatgcagccttatagcttagggtattttctacatcgatataaatgaaccttccttctatttgcag
Basic information
species | Arabidopsis thaliana |
transcript | AT5G07290.1 |
intron # | 11 |
splice site | 5' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: AT5G07290.1 (Arabidopsis thaliana), 5'ss of exon 11
lower sequence: LOC_Os02g31290.1 (Oryza sativa), 5'ss of exon 12
GTATACTTCTAAGATGCTCCTAGCTGCTATTGATGAGTACTGTAAAGGAACATATGATTTTCTTTATTTGCCAATTGACTTCAAGgtatgcaggcctcttacctgttttttcatctaatggagtctaatgcagccttatagcttagggtattttctacatcgatataaatgaaccttccttctatttgcag
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GTACACCTCAAAGATGCTTCTAGCTGCTATTGATGAAAATCATAAAGGGACTTATGATTTTATTTACCTACCAATTGACTTCAAGgtgatctagatt--tatttagtatg-caactaataca-tcatatttgttcagatagtcttgcctaatcgaattactgaatgggatgtgtcctacttttcag-----
upper sequence: AT5G07290.1 (Arabidopsis thaliana), 5'ss of exon 11
lower sequence: GLYMA08G01040.1 (Glycine max), 5'ss of exon 12
GTATACTTCTAAGATGCTCCTAGCTGCTATTGATGAGTACTGTAAAGGAACATATGATTTTCTTTATTTGCCAATTGACTTCAAGgtatgcaggcct--cttacctgttttttcatctaatggagtctaatgcagccttatagcttagggtattttctacatcgatataaatgaaccttccttctatttgcag
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GTATACTTCAAAGATGCTTCTTGCTGCAATAGACGAGCAATGTAAAGGAACTTATGATTTTCTGTATTTACCGATTGATTTCAAGgtaagtatttctggttgatttattctttccttttgagaag---aaatcataaatatgtttctaattttagtctacaacgattgcag----------------------
upper sequence: AT5G07290.1 (Arabidopsis thaliana), 5'ss of exon 11
lower sequence: GLYMA04G37810.2 (Glycine max), 5'ss of exon 8
GTATACTTCTAAGATGCTCCTAGCTGCTATTGATGAGTACTGTAAAGGAACATATGATTTTCTTTATTTGCCAATTGACTTCAAGgtatgcaggcctcttacctgttttttcatctaatggagtctaatgcagccttatagcttagggtattttctacatcgatataaatgaaccttccttctatttgcag
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GTATACTTCAAAGATGCTTCTTGTTGCCATAGATGAGCAATGTCGAGGAACTTATGATTTTCTGTATTTGCCAATTGATTTCAAGgcaagta----tttatttggacttgctagttgattgattct-------ttacttaaatgaagtaatcataaatatgtttctaagtcaattctacaaatggttgcag
upper sequence: AT5G07290.1 (Arabidopsis thaliana), 5'ss of exon 11
lower sequence: GLYMA06G17250.1 (Glycine max), 5'ss of exon 10
GTATACTTCTAAGATGCTCCTAGCTGCTATTGATGAGTACTGTAAAGGAACATATGATTTTCTTTATTTGCCAATTGACTTCAAGgtatgcaggcctcttacctgttttttcatctaatggagtctaatgcagccttatagcttagggtat-tttctacatcgatataaatgaaccttccttctatttgcag
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GTATACTTCAAAGATGCTTCTTGTTGCCATAGATGAGCAATGTCGAGGAACTTATGATTTTCTgtatttgccaattgatttcaaggcaagtatttatttggacttgctagttgcttgattc--tttacttaaatgaagcaattataaatgtgtttctaag--------------------------------
upper sequence: AT5G07290.1 (Arabidopsis thaliana), 5'ss of exon 11
lower sequence: GLYMA04G37810.1 (Glycine max), 5'ss of exon 10
GTATACTTCTAAGATGCTCCTAGCTGCTATTGATGAGTACTGTAAAGGAACATATGATTTTCTTTATTTGCCAATTGACTTCAAGgtatgcaggcctctt-acctgttttttcatctaatggagtctaatgcagccttatagcttagggtat-tttctacatcgatataaatgaaccttccttctatttgcag
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GTATACTTCAAAGATGCTTCTTGTTGCCATAGATGAGCAATGTCGAGGAACTTATGATTTTCTgtatttgccaattgatttcaaggcaagtatttatttggacttgctagttgattgattc---tttacttaaatgaagtaatcataaatatgtttctaag--------------------------------
upper sequence: AT5G07290.1 (Arabidopsis thaliana), 5'ss of exon 11
lower sequence: Vv17s0000g00240.t01 (Vitis vinifera), 5'ss of exon 12
GTATACTTCTAAGATGCTCCTAGCTGCTATTGATGAGTACTGTAAAGGAACATATGATTTTCTTTATTTGCCAATTGACTTCAAGgtatgcaggcctcttacctgttttttcatctaatggagtctaatgcagccttatagcttagggtattttctacatcgatataaatgaaccttccttctatttgcag
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GTATACTTCAAAAATGCTTCTTGCTGCAATTGATGAACATCATCGAGGAACTTATGATTTTATTTATTTGCCAATTGACTTCAAAgtaagtaaatcttgcatggattgaatttctttggggaagaaaat-ca--catatgacatatgcacatatctgattcgcctttt-tgcaaattctgt---tttgcagMapped 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|116455509|gb|EG498101.1|EG498101EST: AGTACTGTAAAGGAACATATGATTTTCTTTATTTGCCAATTGACTTCAAG AATAAATGCAATGTCGGATATGCTTTCATCAACCTTATCGAACCTGAAAAT
genomic: AGTACTGTAAAGGAACATATGATTTTCTTTATTTGCCAATTGACTTCAAGgtatgcaggc ... ctatttgcagAATAAATGCAATGTCGGATATGCTTTCATCAACCTTATCGAACCTGAAAAT
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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
GTATACTTCTAAGATGCTCCTAGCTGCTATTGATGAGTACTGTAAAGGAACATATGATTTTCTTTATTTGCCAATTGACTTCAAGgtatgcaggcctcttacctgttttttcatctaatggagtctaatgcagccttatagcttagggtattttctacatcgatataaatgaaccttccttctatttgcag
- - - - - - - - - - - - - - - - - - - - - - AAGGAA