Sequence
atgc intronic sequence ATGC exonic sequenceTGGTGAGGGCATATGAGTACATCGATGGTGTTGAAGACATTCTTTACAGTTTGAAGCAAAATAACTATGAAGTGCATGCATTTACAAATTATCCAGTGTGgtgggtttcaacttatcttgacacatttgtacacatgtgcttgttcggttgttcctgaaatatgttctgtag
Basic information
species | Oryza sativa |
transcript | LOC_Os11g19460.2 |
intron # | 4 |
splice site | 5' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: LOC_Os11g19460.2 (Oryza sativa), 5'ss of exon 4
lower sequence: GRMZM2G117609_T01 (Zea mays), 5'ss of exon 4
TGGTGAGGGCATATGAGTACATCGATGGTGTTGAAGACATTCTTTACAGTTTGAAGCAAAATAACTATGAAGTGCATGCATTTACAAATTATCCAGTGTGgtgggtttcaacttatcttgacacatttgtacacatgtgcttgttcggttgttcctgaaatatgttctgtag
||||||| |||||||| ||||| ||||| || ||||| ||||||| | |||||||| ||||||| |||||| ||||||| ||||||||||||||||| ||||| || | | || || ||| || ||||| | ||| | | |||||| ||||||| |||||
TGGTGAGAGCATATGAATACATTGATGGCGTCGAAGATATTCTTTGCTGTTTGAAGAAAAATAATTATGAAATGCATGCTTTTACAAATTATCCAGTATGgtgagtgttagctcatgttggcatgtttgtttat-catgcat--------gatcctgagatatgttttgtag
upper sequence: LOC_Os11g19460.2 (Oryza sativa), 5'ss of exon 4
lower sequence: GLYMA09G38750.1 (Glycine max), 5'ss of exon 3
TGGTGAGGGCATATGAGTACATCGATGGTGTTGAAGACATTCTTTACAGTTTGAAGCAAAATAACTATGAAGTGCATGCATTTACAAATTATCCAGTGTGgtgggtttcaacttatcttgacacatttgtacacatgtgcttgttcggttgttcctgaaatatgttctgtag-----
|| || | |||| |||||| || || ||| | | ||| || ||||||||||||||||| ||||||| |||||||||||||| | |||| | | |||| || | | | | | | ||| |||| || || ||||
TGAGAAGTGGATATTCGTACATAGAAGGCAGCGAACAGTTGCTTCTTTCCTTAAAGCAAAATAACTATGAGATGCATGCTTTTACAAATTATCCTATATGgtaagac---agttatttttctattgtgatttgtgtttttcttttcatggcatcctactgaattttttgtattgtag
upper sequence: LOC_Os11g19460.2 (Oryza sativa), 5'ss of exon 4
lower sequence: GLYMA18G47580.1 (Glycine max), 5'ss of exon 3
TGGTGAGGGCATATGAGTACATCGATGGTGTTGAAGACATTCTTTACAGTTTGAAGCAAAATAACTATGAAGTGCATGCATTTACAAATTATCCAGTGTGgtgggtttcaacttatcttgacacatttgtacacatgtgcttgttcggttgttcctgaaatatgttctgtag------
| || | |||| ||||| || || | ||| | | ||| || |||| |||||||||||| ||||||| |||||||||||||| | |||| | | |||| || | | | | | | ||| |||| ||||| ||||
-GAGAAGTGGATATTCATACATAGAAGGCATCGAACAGTTGCTTCTTTCCTTAAAGCTAAATAACTATGAGATGCATGCTTTTACAAATTATCCTATATGGtaagac---agttatttttctattgtgatttgtgtttttcttttcatggcatcctactgaatgttttgtattgtaggMapped 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|117236431|gb|CT848881.1|CT848881EST: TTGAAGCAAAATAACTATGAAGTGCATGCATTTACAAATTATCCAGTGTG GTACCAGTTAGTTGAGGAGAAGTTAAAGCTCTCAAAGTATTTGTCCTGGAC
genomic: TTGAAGCAAAATAACTATGAAGTGCATGCATTTACAAATTATCCAGTGTGgtgggtttca ... tgttctgtagGTACCAGTTAGTTGAGGAGAAGTTAAAGCTCTCAAAGTATTTGTCCTGGAC
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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
TGGTGAGGGCATATGAGTACATCGATGGTGTTGAAGACATTCTTTACAGTTTGAAGCAAAATAACTATGAAGTGCATGCATTTACAAATTATCCAGTGTGgtgggtttcaacttatcttgacacatttgtacacatgtgcttgttcggttgttcctgaaatatgttctgtag
- - - - - - - - - - - - - - - - - - - - - - - - - TTGAAG
- - - - - - - - - - - - - - - - - - - - - - - - - TGAAGC
- - - - - - - - - - - - - - - - - - - - - - - - - - AAGCAA