Sequence
atgc intronic sequence ATGC exonic sequenceGGCTATCAAGGCCGCGCAGCTGGGTCTCAGCGTCGCCTGCGTGGAGGGGCGTGGCGCGCTGGGCGGCACCTGCCTCAACGTGGGCTGCATCCCCTCCAAGgtgtggcgccgggggctgagcattaaggtggtgggaggtggggccgaggggaggccaatggcagccgcaacgggggctgggatggggacacgtagtaggg...
Basic information
species | Chlamydomonas reinhardtii |
transcript | EDP01871 |
intron # | 2 |
splice site | 5' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: EDP01871 (Chlamydomonas reinhardtii), 5'ss of exon 2
lower sequence: LOC_Os05g06750.1 (Oryza sativa), 5'ss of exon 1
GGCTATCAAGGCCGCGCAGCTGGGTCTCAGCGTCGCCTGCGTGGAGGGGCGTGGCGCGCTGGGCGGCACCTGCCTCAACGTGGGCTGCATCCCCTCCAAGgtgtggcgccgggggctgagc---attaaggtggtgggaggtggggccgaggggaggccaatggcagccgcaacgggggctgggatggggacacgtagtaggg-
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CGCCATCAAGGCGGCGCAGCTAGGGCTCAAGACCACCTGCATCGAGAAGAGGGGAACGCTCGGGGGCACCTGCCTCAACGTCGGCTGCATCCCCTCCAAGgtatcgccccctccctcccgccccgtctccgcgccgcgatctgggatggatggctgcgcgttccccgctgtta---gctctcgga-gagctcgtagatccgtgc
upper sequence: EDP01871 (Chlamydomonas reinhardtii), 5'ss of exon 2
lower sequence: LOC_Os01g22520.1 (Oryza sativa), 5'ss of exon 1
GGCTATCAAGGCCGCGCAGCTGGGTCTCAGCGTCGCCTGCGTGGAGGGGCGTGGCGCGCTGGGCGGCACCTGCCTCAACGTGGGCTGCATCCCCTCCAAGgtg-tggcgccgggggctgagcattaaggtggtgggaggtggggccgaggggaggccaatggcagccgcaacgggggctgggatggggacacgtagtaggg--
||| |||||||| ||||||||||| |||| | ||||| | ||| | | ||| | || ||||| || ||||||||||| ||||||||||||||||||||| || || | || | | | ||| | | | || || || | ||| | | |||
GGCGATCAAGGCGGCGCAGCTGGGGCTCAAGACCACCTGCATCGAGAAGAGGGGCACCCTCGGCGGGACATGCCTCAACGTCGGCTGCATCCCCTCCAAGgtgaccacgacgatg-ctctccccctcgtccctccccctctttttcgatctcctctctactgtc-ttgcgggttcggttgaggtggatgcg-attttagatct
upper sequence: EDP01871 (Chlamydomonas reinhardtii), 5'ss of exon 2
lower sequence: GRMZM2G462140_T01 (Zea mays), 5'ss of exon 1
GGCTATCAAGGCCGCGCAGCTGGGTCTCAGCGTCGCCTGCGTGGAGGGGCGTGGCGCGCTGGGCGGCACCTGCCTCAACGTGGGCTGCATCCCCTCCAAGgtgtggcgccgggggctgagcattaaggtggtggga--ggtggggccgaggggaggccaatggcagccgcaacgggggctgg-gatggg-gacacgtagtaggg
||| |||||||||||||||||||| |||| | ||||| | ||| | | ||| | || ||||| |||||||||||||| || |||||||| ||||||||| ||| | | | || | | | ||| || | |||| | | | || |||| || | |||
GGCGATCAAGGCCGCGCAGCTGGGGCTCAAGACCACCTGCATCGAGAAGAGGGGCACTCTCGGCGGGACCTGCCTCAACGTCGGATGCATCCCATCCAAGgtg--atgccctagctcgtcttctcagcttctcgctctggtaaccccattgctgtgccaccaatctctttgttgcgatgtgatgatgtttgatctggggtat--
upper sequence: EDP01871 (Chlamydomonas reinhardtii), 5'ss of exon 2
lower sequence: GLYMA17G04210.1 (Glycine max), 5'ss of exon 1
GGCTATCAAGGCCGCGCAGCTGGGTCTCAGCGTCGCCTGCGTGGAGGGGCGTGGCGCGCTGGGCGGCACCTGCCTCAACGTGGGCTGCATCCCCTCCAAGgtgtggcgccgggggctgagcattaaggtggtgggaggtggggccgaggggaggccaatggcagccgcaacgggggctgggatggggacacgtagtaggg---
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CGCCATCAAAGCCGCGCAGCTCGGTCTGAAAACCACTTGCATCGAAAAGCGTGGCACTCTCGGCGGTACCTGCCTCAACGTCGGATGCATCCCTTCCAAGgttcattttctttttcaaaccgcttttctgtttgtgtgtggcattc---ggaattcattttctagttcgtttaaatcttgtgttgtttctggttcttatcttt
upper sequence: EDP01871 (Chlamydomonas reinhardtii), 5'ss of exon 2
lower sequence: GLYMA07G36040.1 (Glycine max), 5'ss of exon 1
GGCTATCAAGGCCGCGCAGCTGGGTCTCAGCGTCGCCTGCGTGGAGGGGCGTGGCGCGCTGGGCGGCACCTGCCTCAACGTGGGCTGCATCCCCTCCAAGgtgtggcgccgggggctgagcattaaggtggtgggaggtggggccgaggggaggccaatggcagccgcaa--cgggggctgggatggggacacgtagtaggg--
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GGCCATTAAAGCGGCGCAGCTGGGTCTGAAAACCACTTGCATCGAAAAACGTGGCACTCTCGGCGGTACCTGCCTCAACGTCGGATGCATCCCTTCCAAGgttcattttcttcaaacc-gcttttccttttcccctttttttgtttctgcgtgtc---tgggattcgaaattcattttctagttcgtttaaatcttgtgttgttMapped 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|49465499|gb|BP093412.1|BP093412EST: GTGGCGCGCTGGGCGGCACCTGCCTCAACGTGGGCTGCATCCCCTCCAAG GCTCTGCTGAACAGCAGCCACATGTACATGGAGGCCAAGCAGCACTTCGGC
genomic: GTGGCGCGCTGGGCGGCACCTGCCTCAACGTGGGCTGCATCCCCTCCAAGgtgtggcgcc ... cccaccccagGCTCTGCTGAACAGCAGCCACATGTACATGGAGGCCAAGCAGCACTTCGGC
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 |
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---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
GGCTATCAAGGCCGCGCAGCTGGGTCTCAGCGTCGCCTGCGTGGAGGGGCGTGGCGCGCTGGGCGGCACCTGCCTCAACGTGGGCTGCATCCCCTCCAAGgtgtggcgccgggggctgagcattaaggtggtgggaggtggggccgaggggaggccaatggcagccgcaacgggggctgggatggggacacgtagtaggg
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - tgagcat
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -tgggatg
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -acacgta