Sequence
atgc intronic sequence ATGC exonic sequencegtatgcgaaattacaatgcattaattcttcatgcatctcaatcttgtttgcctactaagtttcctgtgtgatgtggttaattagttcttgagatttaagggttgattatgagttatatgctcatagtgcagtactttaatgtcagGCCATTTTCTACTGACAAATCTCTTGATGGAGAACATGAAGAGCACAAGTAGTGAAAGCGGTGTTGAAGGAAGGATCGTAAATGTGTCGTCTTGGTGGCA
Basic information
species | Oryza sativa |
transcript | LOC_Os10g40000.1 |
intron # | 2 |
splice site | 3' |
intron type | U2 |
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|112786210|gb|EE592281.1|EE592281EST: CACACGGTCCGTTGACGGCCTGGAATTGCATTTTGCAACTAACTACATTG GCCATTTTCTACTGACAAATCTCTTGATGGAGAACATGAAGAGCACAAGTA
genomic: CACACGGTCCGTTGACGGCCTGGAATTGCATTTTGCAACTAACTACATTGgtatgcgaaa ... ttaatgtcagGCCATTTTCTACTGACAAATCTCTTGATGGAGAACATGAAGAGCACAAGTA
atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.agatttaagggttgattatgagttatatgctcatagtgcagtactttaatgtcagGCCATTTTCTACTGACAAATCTCTTGATGGAGAACATGAAGAGCACAAGTAGTGAAAGCGGTGTTGAAGGAAGGATCGTAAATGTGTCGTCTTGGTGGCA
ctttaat putative branch site (score: 4)
attatgagttatat 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gtatgcgaaattacaatgcattaattcttcatgcatctcaatcttgtttgcctactaagtttcctgtgtgatgtggttaattagttcttgagatttaagggttgattatgagttatatgctcatagtgcagtactttaatgtcagGCCATTTTCTACTGACAAATCTCTTGATGGAGAACATGAAGAGCACAAGTAGTGAAAGCGGTGTTGAAGGAAGGATCGTAAATGTGTCGTCTTGGTGGCA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TTGAAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGGAA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TGGTGG