Sequence
atgc intronic sequence ATGC exonic sequenceTGTTTCATATAAAGATCTGTATGGATGGACAATGGATGAGATTGTGAAAATGATTGGTTTGAAGAACAATTGCACCTTTTGTGGTGTATTCCGTCGACAGgtagggagcagtgccgttttctttttgttgttcaactttcagtttgtcaataactctgcataccaccaacactcttgtgtttaattcatctcaag
Basic information
species | Arabidopsis thaliana |
transcript | AT2G44270.1 |
intron # | 4 |
splice site | 5' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: AT2G44270.1 (Arabidopsis thaliana), 5'ss of exon 4
lower sequence: LOC_Os01g41565.1 (Oryza sativa), 5'ss of exon 4
TGTTTCATATAAAGATCTGTATGGATGGACAATGGATGAGATTGTGAAAATGATTGGTTTGAAGAACAATTGCACCTTTTGTGGTGTATTCCGTCGACAGgtagggagcagtgccgttttctttttgttgttcaactttcagtttgtcaataactctgcat-accaccaacactcttgtgtttaattcatctcaag
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AATTTCTTATAAGGACCTCTATGGCTGGACAATGGATGATATTGTGAAAGCAATTGGCCTAAAAAATAATTGTACCTTTTGTGGTGTTTTTCGACGTCAGgta------attcttacttgcctctt-tggtgcaattttttactagttataggttaagctttactgccaatccttttttctag-------------
upper sequence: AT2G44270.1 (Arabidopsis thaliana), 5'ss of exon 4
lower sequence: GRMZM2G402242_T02 (Zea mays), 5'ss of exon 4
TGTTTCATATAAAGATCTGTATGGATGGACAATGGATGAGATTGTGAAAATGATTGGTTTGAAGAACAATTGCACCTTTTGTGGTGTATTCCGTCGACAGgtagggagcagtgccgttttctttttgttgttcaactttcagtttgtcaataactctgcataccaccaacactcttgtgtttaattcatctcaag
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TGTTTCCTATAAAGATTTGTATGGCTGGACAATGGATGATATTGTCAAAGCAATTGGTCTAAAAAACAATTGTACTTTCTGTGGAGTTTTTCGACGTCAGgtactctttacttgcaagcctttcacat-gt---atctttaattcttcactccatcttcaca--gacaatccttttctatgtag-----------
upper sequence: AT2G44270.1 (Arabidopsis thaliana), 5'ss of exon 4
lower sequence: Vv18s0001g00440.t01 (Vitis vinifera), 5'ss of exon 4
TGTTTCATATAAAGATCTGTATGGATGGACAATGGATGAGATTGTGAAAATGATTGGTTTGAAGAACAATTGCACCTTTTGTGGTGTATTCCGTCGACAGgta--gggagcagtgccgttttctttttgttgttcaactttcagtttgt-caataactctgcataccaccaacactcttgtgtttaattcatctcaag-------
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TGTATCTTACAAGGATTTGTATGGATGGACGATGGATGAAATAGTGAAGATGATAGGTTTAAAGAACAACTGCACATTTTGTGGTGTTTTTCGTCGTCAGgtgtgagaattaatttcttctaggctaggaaatgaaaattgtatttttttcaataagtgtat-cgcctctgata----tgtgctgaaagtatccagaattatcta
upper sequence: AT2G44270.1 (Arabidopsis thaliana), 5'ss of exon 4
lower sequence: EFJ25043 (Selaginella moellendorffii), 5'ss of exon 4
TGTTTCATATAAAGATCTGTATGGATGGACAATGGATGAGATTGTGAAAATGATTGGTTTGAAGAACAATTGCACCTTTTGTGGTGTATTCCGTCGACAGgtagggagcagtgccgttttctttttgttgttcaactttcagtttgtcaataactctgcataccaccaacactcttgtgtttaattcatctcaag
| || || ||||| || || || ||||| |||||||| || || ||| |||||| |||||||| |||||||| || ||||||||||| |||||||||| || |||| |||| | | || || | | || || || || | | | || | |
CTTGTCCTACAAAGAGCTTTACGGGTGGACCATGGATGAAATCGTCAAAGAGATTGGACGCAAGAACAACTGCACCTTCTGCGGTGTATTCCGGCGACAGgtagat-------ccttttttgtttttctatctctctctctctctctctccaaagctacagagacttggctcgttttttcgcag-----------
upper sequence: AT2G44270.1 (Arabidopsis thaliana), 5'ss of exon 4
lower sequence: EFJ30001 (Selaginella moellendorffii), 5'ss of exon 4
TGTTTCATATAAAGATCTGTATGGATGGACAATGGATGAGATTGTGAAAATGATTGGTTTGAAGAACAATTGCACCTTTTGTGGTGTATTCCGTCGACAGgtagggagcagtgccgttttctttttgttgttcaactttcagtttgtcaataactctgcataccaccaacactcttgtgtttaattcatctcaag
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CTTGTCCTACAAAGAGCTTTACGGGTGGACCATGGATGAAATCGTCAAAGAGATTGGACGCAAGAACAACTGCACCTTCTGCGGTGTATTCCGGCGACAGgtaga------------tccttttttgtttttcta-tctctctctctctctctctctccaaagctacag-agacttg-gctcgttttttcgcag-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|86056680|gb|DR352437.1|DR352437EST: TGATTGGTTTGAAGAACAATTGCACCTTTTGTGGTGTATTCCGTCGACAG GCACTTGACCGAGGAGCTGCGTTATT
genomic: TGATTGGTTTGAAGAACAATTGCACCTTTTGTGGTGTATTCCGTCGACAGgtagggagca ... tcatctcaagGCACTTGACCGAGGAGCTGCGTTATT
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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
TGTTTCATATAAAGATCTGTATGGATGGACAATGGATGAGATTGTGAAAATGATTGGTTTGAAGAACAATTGCACCTTTTGTGGTGTATTCCGTCGACAGgtagggagcagtgccgttttctttttgttgttcaactttcagtttgtcaataactctgcataccaccaacactcttgtgtttaattcatctcaag
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - TTGAAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - TGAAGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGAAC