Sequence
atgc intronic sequence ATGC exonic sequenceCAAGTTCGTGCAGTGCCCGGAGGGCGAGCTGCAGAAGCGCAAGGAGGTGGTGCACGTGGTCACGCTGCACGAGATTGACGTCATTAACAGCAGGACGCAGgtgtgttgtgggtgggcggctcggtggggcggcatcctggcactcacgttaacgcacctggccggagccgcatctctagccgccatgccagcttccgagc...
Basic information
species | Chlamydomonas reinhardtii |
transcript | EDP05775 |
intron # | 6 |
splice site | 5' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: EDP05775 (Chlamydomonas reinhardtii), 5'ss of exon 6
lower sequence: LOC_Os06g08770.1 (Oryza sativa), 5'ss of exon 1
-------CAAGTTCGTGCAGTGCCCGGAGGGCGAGCTGCAGAAGCGCAAGGAGGTGGTGCACGTGGTCACGCTGCACGAGATTGACGTCATTAACAGCAGGACGCAGgtgtgttgtgggtgggcggctcggtggggcggcatcctggcactcacgttaacgcacctggccggagccgcatctctagccgccatgccagcttccgagc
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CTCACACCAAGTTCGTCAAGTGCCCCGAGGGCGAGCTCCAGAAGCGCAAGGAGGTCGTGCATTGTGTCACCTTACATGAAATTGATGTCATCAATAGCCGgtaatttcacattcccttcccaaaaattcgtc----cattactggagtagatatttcatactacctgacaagaaatctacattgaagtatttaatcattttggc---
upper sequence: EDP05775 (Chlamydomonas reinhardtii), 5'ss of exon 6
lower sequence: Vv00s0682g00010.t01 (Vitis vinifera), 5'ss of exon 1
-------CAAGTTCGTGCAGTGCCCGGAGGGCGAGCTGCAGAAGCGCAAGGAGGTGGTGCACGTGGTCACGCTGCACGAGATTGACGTCATTAACAGCAGGACGCAGgtgtgttgtgggtgggcggctcggtggggcggca-tcctggcactcacgttaacgcacctggccggagccgcatctctagccgccatgccagcttccgagc
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CTCAAACCAAGTTCGTACAGTGCCCGGATGGGGAGTTGCAGAAGAGGAAGGAGGTCGTGCATTGCGTTACACTTCATGAAATCGATGTTATTAATAGCAGg-tattgctctctc-tgactaagatgcttaaattatcgataatcatgatattactgataattgtttttattggtaac------ttggttaccatataagcctttgggt
upper sequence: EDP05775 (Chlamydomonas reinhardtii), 5'ss of exon 6
lower sequence: EFJ31068 (Selaginella moellendorffii), 5'ss of exon 1
-------CAAGTTCGTGCAGTGCCCGGAGGGCGAGCTGCAGAAGCGCAAGGAGGTGGTGCACGTGGTCACGCTGCACGAGATTGACGTCATTAACAGCAGGACGCAGgtgtgttgtgggtgggcggctcggtggggcggcatcctggcactcacgttaacgcacctggccggagccgcatctctagccgccatgccagcttccgagc
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CACAGACTCGATTCGTCCAGTGCCCCGATGGCGAGCTCCAGAAGCGCAAGGAAGTCGTCCATGTTGTGACTTTGCACGAGATCGATGTGATCAACAGCAGgtta---gtaccacctttcttctcatctc------------ttccaagtctc-tggagatgttcttgaacgggtttcttcttccag---------------------
upper sequence: EDP05775 (Chlamydomonas reinhardtii), 5'ss of exon 6
lower sequence: EFJ34646 (Selaginella moellendorffii), 5'ss of exon 1
-------CAAGTTCGTGCAGTGCCCGGAGGGCGAGCTGCAGAAGCGCAAGGAGGTGGTGCACGTGGTCACGCTGCACGAGATTGACGTCATTAACAGCAGGACGCAGgtgtgttgtgggtgggcggctcggtggggcggcatcctggcactcacgttaacgcacctggccggagccgcatctctagccgccatgccagcttccgagc
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CACAGACTCGATTCGTCCAGTGCCCCGATGGCGAGCTCCAGAAGCGCAAGGAAGTCGTCCACGTTGTGACTTTGCACGAGATCGATGTGATCAACAGCAGgtta---gtaccacctttcttctcatctc------------ttccaagtctc-tggagatgttcttgaacgggtttcttcttccag---------------------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|10773003|gb|AV623826.1|AV623826EST: GCAGGACGCAG GGCTTCCTGGCGCTGTTCTCGGGCGACACGGGCGAGATCCGCTCCGAGGTG
genomic: GCAGGACGCAGgtgtgttgtg ... cgcgctgcagGGCTTCCTGGCGCTGTTCTCGGGCGACACGGGCGAGATCCGCTCCGAGGTG
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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
CAAGTTCGTGCAGTGCCCGGAGGGCGAGCTGCAGAAGCGCAAGGAGGTGGTGCACGTGGTCACGCTGCACGAGATTGACGTCATTAACAGCAGGACGCAGgtgtgttgtgggtgggcggctcggtggggcggcatcctggcactcacgttaacgcacctggccggagccgcatctctagccgccatgccagcttccgagc
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - tgtgggt
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - cactcac
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - aacgcac