Sequence
atgc intronic sequence ATGC exonic sequencegtaatatattctctttatatccatatctgtaaattgcattttatgggtatcacatgctttatgtctcctttttcagAGGAATTGATGACTCCCGACCAGGAGAAGTTAGTGATGATATGTCCATCTTACAG
Basic information
species | Oryza sativa |
transcript | LOC_Os12g06200.2 |
intron # | 5 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: LOC_Os12g06200.1 (Oryza sativa), 3'ss of exon 5
lower sequence: GRMZM5G829408_T01 (Zea mays), 3'ss of exon 7
gtaatatattctctttatatccatatctgtaaattgcattttatgggtatcacatgctttatgtctcctttttcagAGGAATTGATGACTCCCGACCAGGAGAAGTTAGTGATGATATGTCCATCTTACAG
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gtaat-tattctca--atgtctgtatctgtaattggtggtttatgggcattacttaattcatgtggccttttgtagAGGAGTTGACGACTCTCGACCCGAAGAAGTTAGTGATGATATGTCCATTTTACAG
upper sequence: LOC_Os12g06200.1 (Oryza sativa), 3'ss of exon 5
lower sequence: GRMZM2G029735_T01 (Zea mays), 3'ss of exon 4
gtaatatattctctttatatccatatctgtaaattgcattttatgggtatcacatgctttatgtctcctttttcagAGGAATTGATGACTCCCGACCAGGAGAAGTTAGTGATGATATGTCCATCTTACAG
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gtaat-tattctcattgt--ctgtatctataattggtggtttatgggcattacttaattcatgtggccttttgtagAGGAGTTGACGACTCTCGACCCGGAGAAGTTAGTGATGATATGTCCATTTTACAG
upper sequence: LOC_Os12g06200.1 (Oryza sativa), 3'ss of exon 5
lower sequence: GRMZM2G052515_T01 (Zea mays), 3'ss of exon 5
gtaatatattctctttatatccatatctgtaaattgcattttatgggtatcacatgctttatgtctcctttttcagAGGAATTGATGACTCCCGACCAGGAGAAGTTAGTGATGATATGTCCATCTTACAG
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gtaat-tattctca--atgtctgtatctgtaattggtgttttatgggcattacttaattcatgtggccttttgtagAGGAGTTGATGACTCTCGACCCGGAGAAGTTAGTGATGATATGTCAATTTTACAGMapped 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|58679104|gb|CK067791.1|CK067791EST: ACAATATCCGTTGGAA AGGAATTGATGACTCTCGACCAGGAGAAGTTAGTGATGATATGTCCATCTT
genomic: ACAATATCCGTTGGAAgtaatatatt ... cctttttcagAGGAATTGATGACTCCCGACCAGGAGAAGTTAGTGATGATATGTCCATCTT
atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.catatctgtaaattgcattttatgggtatcacatgctttatgtctcctttttcagAGGAATTGATGACTCCCGACCAGGAGAAGTTAGTGATGATATGTCCATCTTACAG
ctttatgtctcctttt CT-rich tract
taaattgcattttat 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gtaatatattctctttatatccatatctgtaaattgcattttatgggtatcacatgctttatgtctcctttttcagAGGAATTGATGACTCCCGACCAGGAGAAGTTAGTGATGATATGTCCATCTTACAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGGAGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GGAGAA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGAAGT