Sequence
atgc intronic sequence ATGC exonic sequence...aattaaaccagtagatgaataaatagatcaaatgttaccttctgaactcaagatctcacgtttgttttaaaacctttgacgaggcactacgtggcctcagCAAGAGATCTAGCAAGAATCAATGGAACAACAAAGGCACCAGTCATGAACTATGCGGCGGAATCAATTCTTGCTGTGGTGACCATCAGGTCTTTTGGGGA
Basic information
species | Oryza sativa |
transcript | LOC_Os06g36650.1 |
intron # | 6 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: LOC_Os06g36650.1 (Oryza sativa), 3'ss of exon 6
lower sequence: GRMZM2G145446_T01 (Zea mays), 3'ss of exon 3
-------------------aattaaaccagtagatgaataaatagatcaaatgttaccttctgaactcaagatctcacgtttgttttaa--aacctttgacgaggcactacgtggcctcagCAAGAGATCTAGCAAGAATCAATGGAACAACAAAGGCACCAGTCATGAACTATGCGGCGGAATCAATTCTTGCTGTGGTGACCATCAGGTCTTTTGGGGA
| | | | ||| | | | ||| ||| | | | || ||| || || | | || || || || ||| |||||||||||| ||||||| || || |||| |||| |||| ||||||||||||||||| || ||||||||||| | ||||||||||| | ||||||||
gtcagtacacattgctgcgagaaataactctag-ttagttaatgtatctagcg--agtttttgagct-aacacgtagttttcaattcaatcaaaacatgaagAGGCACTACGTTTCCTCAGCTAGGGAGCTAGTAAGACTCAACGGAACAACAAAGGCACCTGTAATGAACTATGCATCAGAATCAATTCTCGGTGTGGTGA-------------------
upper sequence: LOC_Os06g36650.1 (Oryza sativa), 3'ss of exon 6
lower sequence: GRMZM2G113203_T01 (Zea mays), 3'ss of exon 5
---------aattaaaccagtagatgaat--aaatagatcaaatgtt-----accttctgaactcaagatctcacgtttgttttaa--aacctttgacgaggcactacgtggcctcagCAAGAGATCTAGCAAGAATCAATGGAACAACAAAGGCACCAGTCATGAACTATGCGGCGGAATCAATTCTTGCTGTGGTGACCATCAGGTCTTTTGGGGA
||| || | || | | | ||| | | | | | || ||| || || | | || || || || ||| |||||||||||| ||||||| || || |||| |||| |||| ||||||||||||||||| || ||||||||||| | ||||||||||| | ||||||||
gtcagtacacattgctgcaagaaataactctagttagttaatgtatctagcgagtttttgagct-aacacatagttttcaattcaatcaaaacatgaagAGGCACTACGTTTCCTCAGCTAGGGAGCTAGTAAGACTCAACGGAACAACAAAGGCACCTGTAATGAACTATGCATCAGAATCAATTCTCGGTGTGGTGA------------------- atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.actcaagatctcacgtttgttttaaaacctttgacgaggcactacgtggcctcagCAAGAGATCTAGCAAGAATCAATGGAACAACAAAGGCACCAGTCATGAACTATGCGGCGGAATCAATTCTTGCTGTGGTGACCATCAGGTCTTTTGGGGA
tttgttttaaaa 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
aattaaaccagtagatgaataaatagatcaaatgttaccttctgaactcaagatctcacgtttgttttaaaacctttgacgaggcactacgtggcctcagCAAGAGATCTAGCAAGAATCAATGGAACAACAAAGGCACCAGTCATGAACTATGCGGCGGAATCAATTCTTGCTGTGGTGACCATCAGGTCTTTTGGGGA
- - aaaccag
- - - - - - - - gaataaa
- - - - - - - - - - - - -gatcaaa
- - - - - - - - - - - - - - - - - - -ccttctg
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -gcactac