Sequence
atgc intronic sequence ATGC exonic sequence...tgcagggtggtggggcggtgctggcggtgcaccggcgctgaccctgtccctcctcctccccgctcgtcccgctccgggtccctccccccctgcagccaagGTGTTCCACCGCGACCTCAAGCCCAAGAACATCCTGGCCAACTCCGACTGCAAACTCAAGATATGTG
Basic information
species | Chlamydomonas reinhardtii |
transcript | EDP02733 |
intron # | 4 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: EDP02733 (Chlamydomonas reinhardtii), 3'ss of exon 4
lower sequence: LOC_Os02g04230.1 (Oryza sativa), 3'ss of exon 2
------------------------------------------tgcagggtggtggggcggtgctggcggtgcaccggcgctgaccctgtccctcctcctccccgctcgtcccgctccgggtccctccccccctgcagccaagGTGTTCCACCGCGACCTCAAGCCCAAGAACATCCTGGCCAACTCCGACTGCAAACTCAAGATATGTG----------------------------
|| | || | || | | | | | || | | | || ||| | | |||| || || || || || ||| | ||||| |||||||| |||||||| || ||||||||||| ||||| ||||
gttagtgatgaaattagcatctaattaaccttgtcaccaacagccacttcattccaaatctgtatactttgtggaagttatatttcaaccattaatcattactgagtttctgatatatggtttaacttgtct--cagCTAATGTATTTCATCGTGACTTAAAGCCAAAGAACATACTGGCCAATTCAGACTGCAAACTGAAGATTTGTGATTTTGGACTTGCACGTGTAGCATTTAA
upper sequence: EDP02733 (Chlamydomonas reinhardtii), 3'ss of exon 4
lower sequence: GRMZM2G306028_T02 (Zea mays), 3'ss of exon 2
-------------------------------------------------------tgcagggtggtggggcggtgctggcggtgcaccggcgctgaccctgtccctcctcctccccgctcgtcccgctccgggtccctccccccctgcagccaagGTGTTCCACCGCGACCTCAAGCCCAAGAACATCCTGGCCAACTCCGACTGCAAACTCAAGATATGTG----------------------------
| | || || || || || | | | | | | | | || || |||||| || || || || || ||||| ||||||||||| || ||||| ||||| ||||||||||| || |||||||
gtaagtatattaattagtaccaaccacacagtacctatccaatctagcaagacagtttttgtatttgtcaaattgttgtgggctcatctgttcatggttatccagtttattattacaataatgtgatctttatgttctataccggtgcagCTAATGTATTTCATCGTGACCTAAAGCCCAAGAATATACTGGCTAACTCGGACTGCAAACTGAAAATATGTGACTTTGGTCTTGCCCGTGCATCATTTAA
upper sequence: EDP02733 (Chlamydomonas reinhardtii), 3'ss of exon 4
lower sequence: GRMZM2G135904_T01 (Zea mays), 3'ss of exon 2
---------------------------------------------------------tgcagggtggtggggcggtgctggcg-gtgcaccggcgctgaccctgtccctcctcctccccgctcgt-----cccgctccgggtc-cctccccccctgcagccaagGTGTTCCACCGCGACCTCAAGCCCAAGAACATCCTGGCCAACTCCGACTGCAAACTCAAGATATGTG----------------------------
| | | || | | || ||| | | | | | | || | | | | | ||||| | || |||||| || || ||||| || || || ||||||||||| || ||||| ||||| ||||||||||| || |||||||
gtaagtatattagctagtaccaaccacatggtacctatcccatgtaccaaggcagtttatatatttgtcagactgttgtggttcatctgctcatggttatctagtttgttgttatgatatattatgataatgtgctccttgcggtctatattggtgcagCTAATGTATTCCATCGTGATCTAAAGCCCAAGAATATACTGGCTAACTCGGACTGCAAACTGAAAATATGTGACTTTGGACTTGCCCGTGCATCATTCAA atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.gtccctcctcctccccgctcgtcccgctccgggtccctccccccctgcagccaagGTGTTCCACCGCGACCTCAAGCCCAAGAACATCCTGGCCAACTCCGACTGCAAACTCAAGATATGTG
tccctccccccctgc CT-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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
tgcagggtggtggggcggtgctggcggtgcaccggcgctgaccctgtccctcctcctccccgctcgtcccgctccgggtccctccccccctgcagccaagGTGTTCCACCGCGACCTCAAGCCCAAGAACATCCTGGCCAACTCCGACTGCAAACTCAAGATATGTG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGAAC