Sequence
atgc intronic sequence ATGC exonic sequenceATATGTTCATGGGGATGTGAAACCTGAAAATTTCTTGCTAGGGCCTATTGGAACTCCTGAAGAAAAGAGACTCTTCCTTGTCGATCTTGGTTTAGgtaactaaatcttcacagattaaccaactgctcgatcattgtctattcaattgttttaaggtagcagcagattgaggagtctgaattaattgagtttaatctatctttaaatggcag
Basic information
species | Oryza sativa |
transcript | LOC_Os01g54100.1 |
intron # | 7 |
splice site | 5' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: LOC_Os01g54100.1 (Oryza sativa), 5'ss of exon 7
lower sequence: GRMZM2G120951_T01 (Zea mays), 5'ss of exon 7
ATATGTTCATGGGGATGTGAAACCTGAAAATTTCTTGCTAGGGCCTATTGGAACTCCTGAAGAAAAGAGACTCTTCCTTGTCGATCTTGGTTTAGgtaactaaat------cttcacagattaaccaactgc-tcgatcattgtct--attcaattgtttta-aggtag-cagcagattgaggagtctgaattaattgagtttaatctatcttta--aatggcag
||||||||||| ||||| ||||| || ||||||||||||||| || ||| || ||||||||||||| |||||||||||| |||||||| ||||||| | ||| || | | | ||||| | || || | | | | ||| |||| | | |||| || |||||| ||| || | ||| | || ||| | || ||| |||| ||
GTATGTTCATGGCGATGTCAAACCAGAGAATTTCTTGCTAGGGACTCCTGGGACACCTGAAGAAAAGAAACTCTTCCTTGTTGATCTTGGCTTAGgtaggttaatgtacctttttatcgctcaaccagcagcatctacgacaatttgaatttggctgttctgtatgtagacaacagattaaggtgtgtaaataattttgtattatttgattttttctgatggtag
upper sequence: LOC_Os01g54100.1 (Oryza sativa), 5'ss of exon 7
lower sequence: AT2G25760.2 (Arabidopsis thaliana), 5'ss of exon 7
ATATGTTCATGGGGATGTGAAACCTGAAAATTTCTTGCTAGGGCCTATTGGAACTCCTGAAGAAAAGAGACTCTTCCTTGTCGATCTTGGTTTAGgta-actaaatcttcacagattaaccaactgctcgatcattgtctattcaattgttttaaggtagcagcagattgaggagtctgaattaattgagtttaatctatctttaaatggcag
|||||| ||||| ||||| ||||| || ||||| |||| |||||| ||||||||||||||| || | ||| |||||||| || || || ||||||| ||| || || | | | | | ||||||| ||| || || | | | | ||| | ||
ATATGTGCATGGCGATGTAAAACCAGAGAATTTTCTGCTTGGGCCTCCTGGAACTCCTGAAGAGAAAAAACTTTTCCTTGTAGACCTCGGCTTAGgtacactttatttttgttataagagtgagcgtact-ttattgtct-ttctgctgctt-atccaatctgttgatcttgcag--------------------------------------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|58680661|gb|CK069348.1|CK069348EST: TATTGGAACTCCTGAAGAAAAGAGACTCTTCCTTGTCGATCTTGGTTTAG CTACCAAGTGGAGAGATGCTTCAACTGGCCTCCACGTTGACTATGACCAGC
genomic: TATTGGAACTCCTGAAGAAAAGAGACTCTTCCTTGTCGATCTTGGTTTAGgtaactaaat ... taaatggcagCTACCAAGTGGAGAGATGCTTCAACTGGCCTCCACGTTGACTATGACCAGC
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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
ATATGTTCATGGGGATGTGAAACCTGAAAATTTCTTGCTAGGGCCTATTGGAACTCCTGAAGAAAAGAGACTCTTCCTTGTCGATCTTGGTTTAGgtaactaaatcttcacagattaaccaactgctcgatcattgtctattcaattgttttaaggtagcagcagattgaggagtctgaattaattgagtttaatctatctttaaatggcag
- - - - - - - - - - - - - - - - - - - - - - - - - - - - CTGAAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - TGAAGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGAAA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGAGA