Sequence
atgc intronic sequence ATGC exonic sequenceCTCCTTGAAGTTAATAGGATGCTTCGTGCCGGAGGATATTTTGTTTGGGCAGCACAACCTGTATATAAGCATGAAAAGGCCTTGGAAGAACAGTGGGAAGgtatcatccgtgcaccttaatatatcatttcagcattcatgaagtgtcagttttgcctatacaaacattccaaccaaagctcgtttttgctgaaaactct...
Basic information
species | Arabidopsis thaliana |
transcript | AT5G06050.1 |
intron # | 4 |
splice site | 5' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: AT5G06050.1 (Arabidopsis thaliana), 5'ss of exon 4
lower sequence: LOC_Os01g62800.1 (Oryza sativa), 5'ss of exon 4
CTCCTTGAAGTTAATAGGATGCTTCGTGCCGGAGGATATTTTGTTTGGGCAGCACAACCTGTATATAAGCATGAAAAGGCCTTGGAAGAACAGTGGGAAGgtat-cat------ccgtgcaccttaatatatcatttcagcattcatgaagtgtcagttttgcctatacaaacattccaaccaaagctcgtttttgctgaaaactct
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CTTCTGGAGGTTAATAGAATGCTCAGAGCCGGCGGTTATTTTGCTTGGGCAGCACAGCCTGTTTATAAGCATGAAGAGGCTCAGCAAGAAGCATGGAAAGgtatgcattatttcctatgtacccctagtaatttttgttccattgtgggggaaacacactagtcttt-catttattctgttggtattt--tcccacatgacga----
upper sequence: AT5G06050.1 (Arabidopsis thaliana), 5'ss of exon 4
lower sequence: GRMZM2G042295_T01 (Zea mays), 5'ss of exon 4
CTCCTTGAAGTTAATAGGATGCTTCGTGCCGGAGGATATTTTGTTTGGGCAGCACAACCTGTATATAAGCATGAAAAGGCCTTGGAAGAACAGTGGGAAGgtatcatccgtgcaccttaatatatcatttcagcattcatgaagtgtcagttttgcc-tatacaaa-cat-tccaaccaaagctcgtttttgctgaaaactct
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CTCCTGGAGGTTAATAGATTACTTAGAGCTGGAGGCTACTTTGCTTGGGCAGCACAACCTGTTTATAAGCATGAACAGGCCCAACAAGAGGCATGGAAAGgtattttgtacttactgtgctgtaccttttc--ttttgttagggtgataaactgataacatacaactcatgtatgagtttttttagctcttctttagtgctc-
upper sequence: AT5G06050.1 (Arabidopsis thaliana), 5'ss of exon 4
lower sequence: GRMZM2G092120_T01 (Zea mays), 5'ss of exon 4
CTCCTTGAAGTTAATAGGATGCTTCGTGCCGGAGGATATTTTGTTTGGGCAGCACAACCTGTATATAAGCATGAAAAGGCCTTGGAAGAACAGTGGGAAGgtatcatccgtgcaccttaatatatcatttcagc-attcatgaagtgtcagttttgcctatacaaacattccaaccaaagctcgtttttgctgaaaactct----
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CTCCTGGAGGTTAATAGATTGCTTAGAGCTGGAGGCTACTTTGCTTGGGCAGCCCAACCTGTTTATAAGCATGAAGAGGCCCAACAAGAGGCATGGAAAGgtatgttctacttattctgttgtaccttctcttttgttagtgtgataaca-tacagctcatgtatgagtttggt----agttctttaatgctagagatttgtcatMapped 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|116471162|gb|EG513754.1|EG513754EST: AGCACAACCTGTATATAAGCATGAAAAGGCCTTGGAAGAACAGTGGGAAG AGATGCTAAACCTGACCACTAGGCTGTGCTGGGTTCTTGTAAAGAAGGAAG
genomic: AGCACAACCTGTATATAAGCATGAAAAGGCCTTGGAAGAACAGTGGGAAGgtatcatccg ... gtttttccagAGATGCTAAACCTGACCACTAGGCTGTGCTGGGTTCTTGTAAAGAAGGAAG
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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
CTCCTTGAAGTTAATAGGATGCTTCGTGCCGGAGGATATTTTGTTTGGGCAGCACAACCTGTATATAAGCATGAAAAGGCCTTGGAAGAACAGTGGGAAGgtatcatccgtgcaccttaatatatcatttcagcattcatgaagtgtcagttttgcctatacaaacattccaaccaaagctcgtttttgctgaaaactct
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TGGAAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GGAAGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGAAC
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - atacaaac
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - caaccaaa