Sequence
atgc intronic sequence ATGC exonic sequenceCTACTCAGAAAACTGTTGATGGGCCATCAATGAAGGACTGGAGAGGAGGTCGGGGCGCTAGTCAAAACATCATTCCTAGCTCAACCGGCGCCGCGAAGgtacacaaaaactcacatggttatcgcaagcatgtaattatcctaaatcgggaatcatatctgagctgtggttttttgatcaagtag
Basic information
species | Arabidopsis thaliana |
transcript | AT1G79530.1 |
intron # | 10 |
splice site | 5' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: AT1G79530.1 (Arabidopsis thaliana), 5'ss of exon 10
lower sequence: LOC_Os02g07490.1 (Oryza sativa), 5'ss of exon 10
CTACTCAGAAAACTGTTGATGGGCCATCAATGAAGGACTGGAGAGGAGGTCGGGGCGCTAGTCAAAACATCATTCCTAGCTCAACCGGCGCCGCGAAGgtacacaaaaactcacatggttatcgcaagcatgtaattatcctaaatcgggaatcatatctgagctgtggttttttgatcaagtag
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CCACCCAGAAGACTGTCGATGGCCCTTCAATGAAAGATTGGAGAGGAGGGCGTGGTGCTGCTCAAAACATAATTCCTAGCTCCACTGGTGCAGCCAAGgtacgatgaaccaaaaat--ctaccttgcttttctagat-ttctgttttggctgactgttttgattccttattag------------
upper sequence: AT1G79530.1 (Arabidopsis thaliana), 5'ss of exon 10
lower sequence: GRMZM2G051004_T01 (Zea mays), 5'ss of exon 10
CTACTCAGAAAACTGTTGATGGGCCATCAATGAAGGACTGGAGAGGAGGTCGGGGCGCTAGTCAAAACATCATTCCTAGCTCAACCGGCGCCGCGAAGgtacacaaaaactcacatggttatcgcaagcatgtaattatcctaaatcgggaatcatatctgagctgtggttttttgatcaagtag
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CCACCCAGAAGACCGTTGATGGTCCTTCAATGAAGGATTGGAGAGGAGGACGTGGTGCTGGCCAAAACATAATTCCTAGCTCCACTGGTGCAGCAAAGgta-gctgaagc---caaaggcacaccatgcgtattttagactcaaattttgcac--tgactga--tttcactttgttgtcag----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|125101696|gb|EL156728.1|EL156728EST: TCAAAACATCATTCCTAGCTCAACCGGCGCCGCGAAG GCTGTAGGTAAAGTTCTTCCAGAACTGAATGGGAAACTTACGGGAATGGCC
genomic: TCAAAACATCATTCCTAGCTCAACCGGCGCCGCGAAGgtacacaaaa ... gatcaagtagGCTGTAGGTAAAGTTCTTCCAGAACTGAATGGGAAACTTACGGGAATGGCC
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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
CTACTCAGAAAACTGTTGATGGGCCATCAATGAAGGACTGGAGAGGAGGTCGGGGCGCTAGTCAAAACATCATTCCTAGCTCAACCGGCGCCGCGAAGgtacacaaaaactcacatggttatcgcaagcatgtaattatcctaaatcgggaatcatatctgagctgtggttttttgatcaagtag
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