Sequence
atgc intronic sequence ATGC exonic sequenceTACCACTTGGGGAGAGGTCATATAGGTGCATCTATGAGTGCAAAGCTTTACCATCTTATGGAGCAAAGATCAGCTACATGgtatttctttgttgatttgaattatgttgtagtgttatgatttttctgtttgtctcaccaatttcatttcattttgtttgtag
Basic information
species | Oryza sativa |
transcript | LOC_Os02g20860.2 |
intron # | 2 |
splice site | 5' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: LOC_Os02g20860.2 (Oryza sativa), 5'ss of exon 2
lower sequence: GRMZM2G011777_T02 (Zea mays), 5'ss of exon 1
--------------------TACCACTTGGGGAGAGGTCATATAGGTGCATCTATGAGTGCAAAGCTTTACCATCTTATGGAGCAAAGATCAGCTACATGgtatttctttgttgatttgaattatgttgtagtgttatgatttttctgtttgt---ctcaccaatttcatttcattttgtttgtag
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CTTTTTTTTTTGAATATTAGTATCATTTAGGAAGGGGTCATATAGGTGCATCTATGAAAGCAAAACTTTACCATCTCTTGGAACAAAGATCAGCTTCATGgtatgtttct-tcaacttttactg-gttgcagagtttgcagtaccatgattgtgaattttgtaatctaattttgtttgtcttttag
upper sequence: LOC_Os02g20860.2 (Oryza sativa), 5'ss of exon 2
lower sequence: GRMZM2G011777_T01 (Zea mays), 5'ss of exon 2
TACCACTTGGGGAGAGGTCATATAGGTGCATCTATGAGTGCAAAGCTTTACCATCTTATGGAGCAAAGATCAGCTACATGgtatttctttgttgatttgaattatgttgtagtgttatgatttttctgtttgt---ctcaccaatttcatttcattttgtttgtag
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TATCATTTAGGAAGGGGTCATATAGGTGCATCTATGAAAGCAAAACTTTACCATCTCTTGGAACAAAGATCAGCTTCATGgtatgtttct-tcaacttttactg-gttgcagagtttgcagtaccatgattgtgaattttgtaatctaattttgtttgtcttttagMapped 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|163927364|gb|EG713852.1|EG713852EST: AGATCAGCTACATG CCGTCATTTTGTTATCCCTTTGTGGAAAGGAACTGGATATACTACCATGTT
genomic: AGATCAGCTACATGgtatttcttt ... ttgtttgtagCCGTCATTTTGTTATCCCTTTGTGGAAAGGAACTGGATATACTACCATGTT
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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
TACCACTTGGGGAGAGGTCATATAGGTGCATCTATGAGTGCAAAGCTTTACCATCTTATGGAGCAAAGATCAGCTACATGgtatttctttgttgatttgaattatgttgtagtgttatgatttttctgtttgtctcaccaatttcatttcattttgtttgtag
- - - - - - - - - - - - - - - - - - - GCAAAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - GGAGCA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GCAAAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGATCA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TCAGCT