Sequence
atgc intronic sequence ATGC exonic sequenceTTAGAGAAGAAGAAAAGCAGTACAGAGAAGAATGTGAGCTTAAATGTTCTCCAACAATACTTCTCTGGGAGCTTAAAGGATGCTGCAAAAAGCCTTGGTGgtgagaaactagtactagtagtgctctttgcttgtttcccttacaagattattcaattgctgatccttggatgtttttctttttgctttctttctgcag
Basic information
species | Arabidopsis thaliana |
transcript | AT3G59580.1 |
intron # | 4 |
splice site | 5' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: AT3G59580.1 (Arabidopsis thaliana), 5'ss of exon 4
lower sequence: LOC_Os04g41850.1 (Oryza sativa), 5'ss of exon 5
TTAGAGAAGAAGAAAAGCAGTACAGAGAAGAATGTGAGCTTAAATGTTCTCCAACAATACTTCTCTGGGAGCTTAAAGGATGCTGCAAAAAGCCTTGGTGgtgagaaactagta-ctagtagtgctctttgcttgtt--tcccttacaagattattcaattgctgatccttggat--gtttttctt--tttgctttctttctgcag--------------------------
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GCAGAGAAAAAGCGCAGTACAGCTGAGAAGAATATTAGCTTGGATGTTCTTCGTAAGTACTTCTCTGGGAGCCTAAAGGATGCTGCAAAGAGCCTTGGTGgtgagcctctagtgtctttttgtaaaatgaacttaacaaacctttactgtgttatttgatctactttatgtaaatagggtataattaaatggttgactttctgctgatgccttcttttaatattgggtgcag
upper sequence: AT3G59580.1 (Arabidopsis thaliana), 5'ss of exon 4
lower sequence: LOC_Os11g16290.1 (Oryza sativa), 5'ss of exon 4
TTAGAGAAGAAGAAAAGCAGTACAGAGAAGAATGTGAGCTTAAATGTTCTCCAACAATACTTCTCTGGGAGCTTAAAGGATGCTGCAAAAAGCCTTGGTGgtgagaaactagtactagtagtgctctttgcttgttt-cccttacaagatt-attcaattgctgatccttggatgtttttctttttgctt--tctttctgcag---------------------------------------------------------------------------------------
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GGAGAGAAAAGACGCAGCTCAACAGAGAAGAGTGTTAGCTTAAGTGTCCTCCAGCAGTACTTCTCTGGCAGCCTGAAAGATGCTGCAAAGAGTATTGGTGgtaatttgtttatactctcatgatctttttctgatttattcttatagaattcaattaattcctactaaattagttctgttttgtatgaaaagcactactgctaatacaaatgtagaaacaaactaatccaattgtgtcataggaagaggagcttacaggattttttttattccttgctgttacgttgcag
upper sequence: AT3G59580.1 (Arabidopsis thaliana), 5'ss of exon 4
lower sequence: GRMZM2G105004_T01 (Zea mays), 5'ss of exon 4
TTAGAGAAGAAGAAAAGCAGTACAGAGAAGAATGTGAGCTTAAATGTTCTCCAACAATACTTCTCTGGGAGCTTAAAGGATGCTGCAAAAAGCCTTGGTGgtgagaaac-tagtactagta-gtgctctttgcttgtttcc--cttacaagattattca-attgctgatccttg--gatgtttttctttttgc-------tttctttctgcag------------------------------------------------------
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GCAGATAAAAAGCGCAGTGCATCTGAAAAGAACTTTAGTCTGGATGTTCTTCGCAAATACTTCTCTGGGAGCCTGAGGGATGCTGCAATGAGCCTTGGTGgtgagccctactgtattgttacgaagtctctgttaaatctagatttgctgtgacattcacagtactgattactgaagataatgccatcattgtagaagaatttcttagattaggagattatggaatgaactgcttcttctgacacttgcctataaacaccattgcagMapped 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|125227187|gb|EL241272.1|EL241272EST: ATGCTGCAAAAAGCCTTGGTG TTTGTCCGACTACACTAAAAAGGATATGTAGACAACACGGAATTATGAGAT
genomic: ATGCTGCAAAAAGCCTTGGTGgtgagaaact ... ctttctgcagTTTGTCCGACTACACTAAAAAGGATATGTAGACAACACGGAATTATGAGAT
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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
TTAGAGAAGAAGAAAAGCAGTACAGAGAAGAATGTGAGCTTAAATGTTCTCCAACAATACTTCTCTGGGAGCTTAAAGGATGCTGCAAAAAGCCTTGGTGgtgagaaactagtactagtagtgctctttgcttgtttcccttacaagattattcaattgctgatccttggatgtttttctttttgctttctttctgcag
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GGAGCT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GAGCTT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGGATG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - ATGCTG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TGCTGC