Sequence
atgc intronic sequence ATGC exonic sequenceTTCATGATGCTTTATCAGGACACACTTCTGCCAACGTTGAAGAGGCAGTTGCTTACTCTGAACATAGTGCAACTAAATGCATTGGGATGACAATTGAAACgtgagttcgatgcagtaatcatgtacaacatctaaatttgaaatctgtcttttttgcctcaatgttttctctaaaagccttcatagtatctatatattga...
Basic information
species | Arabidopsis thaliana |
transcript | AT5G50320.1 |
intron # | 3 |
splice site | 5' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: AT5G50320.1 (Arabidopsis thaliana), 5'ss of exon 3
lower sequence: LOC_Os04g40840.1 (Oryza sativa), 5'ss of exon 3
TTCATGATGCTTTATCAGGACACACTTCTGCCAACGTTGAAGAGGCAGTTGCTTACTCTGAACATAGTGCAACTAAATGCATTGGGATGACAATTGAAACgtgagttcgatgcagtaatcatgtacaacatctaaatttgaaatctgtcttttttgcctcaatgttttctcta-aaagccttcatagtatctatatattga--------------------------------
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TTCATGATGCCTTATCGGGACACACTTCTGCTAATGTTGAAGAGGCTGTTTGTTATTCAGAACATGGTGCAGTCAAATGTATTGGCATGACAATTGAGACgtaagatc-atttgacaatc-taaactacccatatgcttaggttccttgatggtt--ctgtatgatttccccatgaaacatctttattaacttcagttctataaactattgttgtctttcctcaaaattacag
upper sequence: AT5G50320.1 (Arabidopsis thaliana), 5'ss of exon 3
lower sequence: GRMZM2G359735_T03 (Zea mays), 5'ss of exon 3
TTCATGATGCTTTATCAGGACACACTTCTGCCAACGTTGAAGAGGCAGTTGCTTACTCTGAACATAGTGCAACTAAATGCATTGGGATGACAATTGAAACgtgagt-tcgatgcagta----atcatgtacaaca-tctaaatttgaaat-------ctgtcttttttgcctcaatgttttc--tc----taaaagccttcatagtatctatatattga--
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TTCATGATGCTTTATCGGGTCACACTTCTGCAAATGTTGAGGAGGCTATTTGTTATTCGGAACATAGTGCTGTCAAATGTATTGGTATGACGATTGAGACgtaagtatcatcgcagaattggatgttgcttatcacttttcattcaaaaggaaagtgttgtcttttccgtcctagggacttcaatcccagtgaaatgtttttttttatcttggaattctag
upper sequence: AT5G50320.1 (Arabidopsis thaliana), 5'ss of exon 3
lower sequence: GLYMA06G18150.1 (Glycine max), 5'ss of exon 3
TTCATGATGCTTTATCAGGACACACTTCTGCCAACGTTGAAGAGGCAGTTGCTTACTCTGAACATAGTGCAACTAAATGCATTGGGATGACAATTGAAACgtgagttcgatgcagtaatcatgtacaacatctaaatttg---aaatctgtcttttttgcctcaatgttttctctaaaagcct-tcatagtatctatatattga
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TTCATGATGCTTTGTCTGGACACACATCTGCCAATGTGGAAGAGGCAGTGGCTTACTCTGAGCATGGGGCAACCAAGTGTATTGGCATGACAATTGAAACgtaagtt-gctgtt-taggtatatacatttgcaatatttgtgaaagtttggagccttggtctgctggtcatgtacagttatgtgtctttttcttttttggtt--
upper sequence: AT5G50320.1 (Arabidopsis thaliana), 5'ss of exon 3
lower sequence: GLYMA04G36790.1 (Glycine max), 5'ss of exon 3
TTCATGATGCTTTATCAGGACACACTTCTGCCAACGTTGAAGAGGCAGTTGCTTACTCTGAACATAGTGCAACTAAATGCATTGGGATGACAATTGAAACgtgagttcgatgcagtaatcat-gtacaacatctaaatttga-aatctgtcttttttgcctcaatgttttctctaaaagccttcatagtatctatatattga
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TTCATGATGCTTTGTCTGGACACACATCTGCTAATGTGGAAGAGGCTGTGGCATACTCTGAGCATGGGGCAACCAAGTGTATTGGTATGACGATTGAAACgtaagttgttaatatttgtgaaagtttggagccttggtctgctggtcaagtacagttacgtgtctgtttctttttttgg--ttaataaaaataatgcatggt
upper sequence: AT5G50320.1 (Arabidopsis thaliana), 5'ss of exon 3
lower sequence: Vv17s0000g10190.t01 (Vitis vinifera), 5'ss of exon 3
TTCATGATGCTTTATCAGGACACACTTCTGCCAACGTTGAAGAGGCAGTTGCTTACTCTGAACATAGTGCAACTAAATGCATTGGGATGACAATTGAAACgtgagttcgatgcagtaatcatgtacaacatctaaatttgaa--atctgtcttttttgcctcaatgttttctctaaaagccttcatagtatctatatattga-
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TACATGATGCTTTGTCAGGACACACTTCTGCCAATGTTGAAGAGGCTGTTGCCTACTCAGAGCATAGTGCAATAAAGTGTATTGGAATGACCATTGAAACgtgagttac---tatttgccctctttgaaatgggaattcacatcatcttcatccctatgctgaacattggtcttagttagattcaaatttcctataattttctMapped 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|125030326|gb|EL102595.1|EL102595EST: GCTTACTCTGAACATAGTGCAACTAAATGCATTGGGATGACAATTGAAAC GAGGCCAGATTACTGCCTTGGACCTCA
genomic: GCTTACTCTGAACATAGTGCAACTAAATGCATTGGGATGACAATTGAAACgtgagttcga ... aattcaccagGAGGCCAGATTACTGCCTTGGACCTCA
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 |
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TTCATGATGCTTTATCAGGACACACTTCTGCCAACGTTGAAGAGGCAGTTGCTTACTCTGAACATAGTGCAACTAAATGCATTGGGATGACAATTGAAACgtgagttcgatgcagtaatcatgtacaacatctaaatttgaaatctgtcttttttgcctcaatgttttctctaaaagccttcatagtatctatatattga
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