Sequence
atgc intronic sequence ATGC exonic sequencegtatgtaaatttttctcgattaaggactgcatgtgagttccctgctactttaatttcatatcatttgacataaaatttgttgagcagATTAACAACAACCTGCGTTGCTACGAACTTTCATCAGAGCTAAGTAGCAGTACATTGGAAGCGCTTCCACAAAACTATGCTGAGCAG
Basic information
species | Oryza sativa |
transcript | LOC_Os02g51430.2 |
intron # | 15 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: LOC_Os02g51430.2 (Oryza sativa), 3'ss of exon 15
lower sequence: GRMZM2G070045_T01 (Zea mays), 3'ss of exon 11
gtatgtaaattttt---ctcgattaaggactgcatgtgagttccctgc-tactttaatttcatatcatttgac----ataaaatttgttga-gcagATTAACAACAACCTGCGTTGCTACGAACTTTCATCAGAGCTAAGTAGCAGTACATTGGAAGCGCTTCCACAAAACTATGCTGAGCAG
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gtatgttcctttctgcttttggacctcgacgagatgtgaatttcctgccttcctttattccttattatttgatccttatgttgtatgtgggtgcagATTAACAATAATCTGCGTTGCTATGAACTTTCATCAGAGCTAAGTAGCAGTACATTGGAGGCGCTTCCACAAAACTATGCTGAACAG
upper sequence: LOC_Os02g51430.2 (Oryza sativa), 3'ss of exon 15
lower sequence: Vv12s0034g02360.t01 (Vitis vinifera), 3'ss of exon 16
------gtatgtaaatttttctcgattaaggactgcatgtgagttccctgctactttaattt--catatcatt--tgacataaaatttgttgagcagATTAACAACAACCTGCGTTGCTACGAACTTTCATCAGAGCTAAGTAGCAGTACATTGGAAGCGCTTCCACAAAACTATGCTGAGCAG
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gtttgtctctcttaaacaagttccatgtgactctatctcttggttttctactaaattaagtcaccatttctttactgctattgacattgt-atccagATTAACAACAATCTACGCTGCTATGATCTAGCATTGGAGCTGAGTAGCAGCACCTTGGAAGCTCTTCCACAGAATTATGCTGAGCAG
upper sequence: LOC_Os02g51430.2 (Oryza sativa), 3'ss of exon 15
lower sequence: Vv03s0097g00670.t01 (Vitis vinifera), 3'ss of exon 16
------gtatgtaaatttttctcgattaaggactgcatgtgagttccctgctactttaattt--catatcatt--tgacataaaatttgttgagcagATTAACAACAACCTGCGTTGCTACGAACTTTCATCAGAGCTAAGTAGCAGTACATTGGAAGCGCTTCCACAAAACTATGCTGAGCAG
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gtttgtctctcttaaacaagttccacgtgactctatctcttggttttctactaaattaagtcaccaattctttactgctattgacattgt-atccagATTAACAACAATCTACGCTGCTATGATCTAGCATTGGAGCTGAGTAGCAGCACCTTGGAAGCTCTTCCACAGAATTATGCTGAGCAGMapped 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|44670727|gb|CR284161.1|CR284161EST: ATGTTGGTTTGGAATCTCCATGTGCATTG ATTAACAACAACCTGCGTTGCTACGAACTTTCATCAGAGCTAAGTAGCAGT
genomic: ATGTTGGCTTGGAATCTCTATGTGCATTGgtatgtaaat ... tgttgagcagATTAACAACAACCTGCGTTGCTACGAACTTTCATCAGAGCTAAGTAGCAGT
atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.gtgagttccctgctactttaatttcatatcatttgacataaaatttgttgagcagATTAACAACAACCTGCGTTGCTACGAACTTTCATCAGAGCTAAGTAGCAGTACATTGGAAGCGCTTCCACAAAACTATGCTGAGCAG
atttgac putative branch site (score: 4)
tttaatttcatatcat 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gtatgtaaatttttctcgattaaggactgcatgtgagttccctgctactttaatttcatatcatttgacataaaatttgttgagcagATTAACAACAACCTGCGTTGCTACGAACTTTCATCAGAGCTAAGTAGCAGTACATTGGAAGCGCTTCCACAAAACTATGCTGAGCAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TGGAAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - ATGCTG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GAGCAG