Sequence
atgc intronic sequence ATGC exonic sequence...tcttaattaatcatgaatgtaaccccccccaaagagggtctaccactttcgtaactaatcatgaatgcaaccctcaccctcaaccgccacccggacgcagATCCGCGAGGGCCTGTACTACAACCCCTACTTCCCGGGCGGCGCCATCGCCATGCCCAAGATGCTGGTGGACGGCGGTGTGGAGTACGAGGACGGCACGC
Basic information
| species | Chlamydomonas reinhardtii |
| transcript | EDO96204 |
| intron # | 7 |
| splice site | 3' |
| intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: EDO96204 (Chlamydomonas reinhardtii), 3'ss of exon 7
lower sequence: LOC_Os01g70960.1 (Oryza sativa), 3'ss of exon 5
------tcttaattaatcatg--aatgtaaccccccccaaagagggtctaccactttcgtaactaatcatgaatgcaaccctcaccctcaaccgccacccggacgc--agATCCGCGAGGGCCTGTACTACAACCCCTACTTCCCGGGCGGCGCCATCGCCATGCCCAAGATGCTGGTGGACGGCGGTGTGGAGTACGAGGACGGCACGC
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ttgcctgctaaagtgcttctgttattgttactcctcctagtg---------cactccctaaatttgcttttgcagtg-tcctaaccttctggcgttgatttgaaatttagATTCGTGAAGGCTTGCATTACAATCCCTACTTCCCTGGTGGTGCCATAGCCATGCCCAAGATGCTTATTGATGGAGCAGTCGAGTATGAAGATGGCACTC
upper sequence: EDO96204 (Chlamydomonas reinhardtii), 3'ss of exon 7
lower sequence: GRMZM2G032367_T01 (Zea mays), 3'ss of exon 5
tcttaattaatcatgaa-tgtaaccccccccaaagagggtctaccactttcgtaactaatcatgaatgcaaccctcaccctcaaccgcc-acccgga-cgcagATCCGCGAGGGCCTGTACTACAACCCCTACTTCCCGGGCGGCGCCATCGCCATGCCCAAGATGCTGGTGGACGGCGGTGTGGAGTACGAGGACGGCACGC
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--ttaaggatgtattatctttcatactcttttccttttttttgtgtttgcctttacta-tcttacaagtaacgataaaaaacattggttgatctgtatcctagATTCGTGAGGGTCTGCACTACAACCCCTACTTCCCTGGTGGTGCCATAGCCATGCCCAAGATGCTCAATGATGGAGCTGTTGAGTATGAGGATGGTACTC
upper sequence: EDO96204 (Chlamydomonas reinhardtii), 3'ss of exon 7
lower sequence: GRMZM2G158479_T04 (Zea mays), 3'ss of exon 5
----tcttaattaatcatgaatgtaaccccccccaaagagggtctaccactttcgtaactaatcatgaatgcaaccctcaccctcaaccgccacccgga-cgcagATCCGCGAGGGCCTGTACTACAACCCCTACTTCCCGGGCGGCGCCATCGCCATGCCCAAGATGCTGGTGGACGGCGGTGTGGAGTACGAGGACGGCACGC
| | | | | || | | || || | | || | || | || | ||| |||| | | | | | | |||| || ||||| ||| ||||||| ||||||||||| || || ||||| |||||||| |||||||| || || | ||| ||||| ||||| || || |
gcataccaaggtcaccttggtttgccttgtcgcctttgaaa--ccatggctcttgttatc--tcgt-aatcaaaccataaaaactttggtttatttgcatcctagATTCGTGAGGGTCTGCACTACAATCCCTACTTCCCTGGTGGTGCCATAGCCATGCCGAAGATGCTTAATGATGGAGCTGTTGAGTATGAGGATGGTACAC atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.ctttcgtaactaatcatgaatgcaaccctcaccctcaaccgccacccggacgcagATCCGCGAGGGCCTGTACTACAACCCCTACTTCCCGGGCGGCGCCATCGCCATGCCCAAGATGCTGGTGGACGGCGGTGTGGAGTACGAGGACGGCACGC
taactaat TA-rich tract
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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
tcttaattaatcatgaatgtaaccccccccaaagagggtctaccactttcgtaactaatcatgaatgcaaccctcaccctcaaccgccacccggacgcagATCCGCGAGGGCCTGTACTACAACCCCTACTTCCCGGGCGGCGCCATCGCCATGCCCAAGATGCTGGTGGACGGCGGTGTGGAGTACGAGGACGGCACGC
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGATG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - ATGCTG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TGGTGG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GGTGGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GTGGAG
- - - - - - atgaatg
- - - - - - -tgaatgt
- - - - - - - - - - aaccccc
- - - - - - - - - - - - - - ccaaaga
