Sequence
atgc intronic sequence ATGC exonic sequenceTAATCGTATACCAGAAGCAGCATTGATGTCGAGATCTTATCTTCCGAGCAAAGTCCCTGAGATTGTAACATTATGGAAAAAGGATCTCCAAAAGgtaccatctgccctatcccctataatatttctttgtttttttctacctattctcatgcttaatcttttgcacacctgtattagatcgtgctcagttgctc...
Basic information
species | Oryza sativa |
transcript | LOC_Os02g11840.2 |
intron # | 12 |
splice site | 5' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: LOC_Os02g11840.1 (Oryza sativa), 5'ss of exon 12
lower sequence: GRMZM2G141587_T03 (Zea mays), 5'ss of exon 21
TAATCGTATACCAGAAGCAGCATTGATGTCGAGATCTTATCTTCCGAGCAAAGTCCCTGAGATTGTAACATTATGGAAAAAGGATCTCCAAAAGgtaccatctgccctatcccctataatatttctttgtttttttctacctattctcatgcttaatcttttgcacacctgtattagatcgtgctcagttgctc
|||||||| || ||||||||||||||| | |||||||||||||| ||||||||||||||||||||| |||| ||||||||||||||||| ||||| | | || ||| | | | | || || | | | || | || | | | | || | | || |||
CAATCGTATTCCGGAAGCAGCATTGATGGCAAGATCTTATCTTCCCAGCAAAGTCCCTGAGATTGTAGCATTGTGGAAAAAGGATCTCCAGAAGgtcttctgtcatgagtctccttagcttccgttctactcacttttatgatatttttttctgcagaacttaattaggttaacatggtcttagtgcgtatctc
upper sequence: LOC_Os02g11840.1 (Oryza sativa), 5'ss of exon 12
lower sequence: GRMZM2G124886_T02 (Zea mays), 5'ss of exon 21
TAATCGTATACCAGAAGCAGCATTGATGTCGAGATCTTATCTTCCGAGCAAAGTCCCTGAGATTGTAACATTATGGAAAAAGGATCTCCAAAAGgtaccatctgccctatcccctataatatttctttgttttt-ttctacctattctcatgcttaatcttt-tgcacacctgtattagatcgtgctcagttgctc--------
|||||||| || ||||||||||||||| | |||||||||||||| ||||||||||||||||||||| | || ||||||||||||||||| ||||| | ||| ||| | | | ||||| || || ||| | | | || | ||||||| |||| | || |||| | || ||
CAATCGTATTCCGGAAGCAGCATTGATGGCCAGATCTTATCTTCCTAGCAAAGTCCCTGAGATTGTAGCGTTGTGGAAAAAGGATCTCCAGAAGgtcttctgtgc---------tatgagactcctttgattccattgtactcagttttatcttaaatctttctgcagatcttacttaggtta-acttggtcttagcgcgtatcMapped 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|29644063|gb|CB649070.1|CB649070EST: CGAGCAAAGTCCCTGAGATTGTAACATTATGGAAAAAGGATCTCCAAAAG GTAAACCCCAAAGCAGCAGAATCATTGGCAGATCCTGACGAGTACCCAAAC
genomic: CGAGCAAAGTCCCTGAGATTGTAACATTATGGAAAAAGGATCTCCAAAAGgtaccatctg ... atctttatagGTAAACCCCAAAGCAGCAGAATCATTGGCAGATCCTGACGAGTACCCAAAC
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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
TAATCGTATACCAGAAGCAGCATTGATGTCGAGATCTTATCTTCCGAGCAAAGTCCCTGAGATTGTAACATTATGGAAAAAGGATCTCCAAAAGgtaccatctgccctatcccctataatatttctttgtttttttctacctattctcatgcttaatcttttgcacacctgtattagatcgtgctcagttgctc
- - - - - - - - - - - - - - - - - - - - - - - GCAAAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - ctatcccc