Sequence
atgc intronic sequence ATGC exonic sequenceGAGAGAGACAATATGCAGAAGACGGAGTTTCTGAAGGCATTATCGGATATGTGGAAGGACTTCGATTCCCGAGTTCTTCGGTATAAAgtatgagcaatccattatctccacttttcatatcaagtgtggtcttatgaaattatggccacattttcttggtttgtgtgctgcttcatagaagatgtta...
Basic information
species | Oryza sativa |
transcript | LOC_Os01g42950.3 |
intron # | 7 |
splice site | 5' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: LOC_Os01g42950.3 (Oryza sativa), 5'ss of exon 7
lower sequence: GRMZM2G061681_T02 (Zea mays), 5'ss of exon 7
GAGAGAGACAATATGCAGAAGACGGAGTTTCTGAAGGCATTATCGGATATGTGGAAGGACTTCGATTCCCGAGTTCTTCGGTATAAAgtatgagcaat-ccattatctccacttttcatatcaagtgtggtcttatgaaattatggccacattttcttggtttgtgtgctgcttcatagaagatgtta
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GAGAGAGATAATATGCAGAAGACAGAGTTTTTGAAGGCATTATCAGATATGTGGAAGGATTTTGATTCCCGAGTTCTTCGATATAAAgtatgttcagtactgcaatccatccttgtcttcttccgaccaatgctacccccatgtgtccactctctgtgagcat-cattttgttatgtaccacttcatt
upper sequence: LOC_Os01g42950.3 (Oryza sativa), 5'ss of exon 7
lower sequence: AT1G22870.1 (Arabidopsis thaliana), 5'ss of exon 7
GAGAGAGACAATATGCAGAAGACGGAGTTTCTGAAGGCATTATCGGATATGTGGAAGGACTTCGATTCCCGAGTTCTTCGGTATAAAgtatgagcaatccattatctcc-acttttcatatcaagtgtggtcttatgaaattatggccacattttcttggtttgtgtgctgct--tcatagaagatgtta--------
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GAGAGAGACAACATGCAGAAGTCTGAGTTCTTAAAAGCATTATCAGATATGTGGAAAGACTTTGATTCTCGTGTATTACGGTATAAGgtagtcactttctggattcttttgcgtattctgttacttaacagaaaacaaatcagttactcaagtgatttgcctagta-acaactaatcaaaccaggttttgtcaagcag
upper sequence: LOC_Os01g42950.3 (Oryza sativa), 5'ss of exon 7
lower sequence: Vv18s0089g00030.t01 (Vitis vinifera), 5'ss of exon 7
GAGAGAGACAATATGCAGAAGACGGAGTTTCTGAAGGCATTATCGGATATGTGGAAGGACTTCGATTCCCGAGTTCTTCGGTATAAAgtatgagcaatccattatctccacttttcatatcaagtgtggtcttatgaaattatggcca-cattttcttggtttgtgtgctgcttcatagaagatgtta-
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GAAAGGGATAACATGCAGAAGTCTGAGTTTCTAAAAGCATTATCGGATATGTGGAAAGATTTTGACTCTCGTGTTTTGCGTTATAAGgtttgaaccacgtgttgtctc--attgcaatgatctttgtatctataatggatggttccaaacaaattcatgatcagggccataatgggttcaattgatcagMapped 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|29682525|gb|CB678800.1|CB678800EST: CATTATCGGATATGTGGAAGGACTTCGATTCCCGAGTTCTTCGGTATAAA GTTCTTCCACCTCTCTGTGCTGAGTTACGCAACATGGTCATGCAGCCAATG
genomic: CATTATCGGATATGTGGAAGGACTTCGATTCCCGAGTTCTTCGGTATAAAgtatgagcaa ... ttgcaaccagGTTCTTCCACCTCTCTGTGCTGAGTTACGCAACATGGTCATGCAGCCAATG
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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
GAGAGAGACAATATGCAGAAGACGGAGTTTCTGAAGGCATTATCGGATATGTGGAAGGACTTCGATTCCCGAGTTCTTCGGTATAAAgtatgagcaatccattatctccacttttcatatcaagtgtggtcttatgaaattatggccacattttcttggtttgtgtgctgcttcatagaagatgtta
- - - - - - - - - - - - - - - - - - - - - - - - - TGGAAG