Sequence
atgc intronic sequence ATGC exonic sequencegtacatatatatatgcatcattgtacaattaatttttttaatttttttagggtaaaaaatgaagactgtgatatagatccattaatttgatcttgtgtacttgtaaatatagGCATCACCAGCATGGGAGATGGCAAGCAAGGATAGGAAGAGTTGCAGGGAACAAGGACCTCTACTTGGGCACCTTCA
Basic information
species | Oryza sativa |
transcript | LOC_Os01g67410.1 |
intron # | 7 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: LOC_Os01g67410.1 (Oryza sativa), 3'ss of exon 7
lower sequence: GRMZM2G141638_T01 (Zea mays), 3'ss of exon 6
------------gtaca-tatatatatgcatcattgtacaattaatttttttaatttttttagggtaaaaaatgaagactgtgatatagatccatta-atttgatcttgtgtacttgtaaatatagGCATCACCAGCATGGGAGATGGCAAGCAAGGATAGGAAGAGTTGCAGGGAACAAGGACCTCTACTTGGGCACCTTCA
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gtatgaatccatatataatagctaggaacatcaacaaacacacatacacttgggttgatgtggcagatgcatgcatggattgaaaatgtgtgcatggtgttttacttgaactgtctgtaattatagGCATCACCAACATGGAAGATGGCAAGCACGGATTGGACGAGTTGCAGGGAACAAGGATCTTTACTTGGGCACCTTCA
upper sequence: LOC_Os01g67410.1 (Oryza sativa), 3'ss of exon 7
lower sequence: EFJ17692 (Selaginella moellendorffii), 3'ss of exon 4
gtacatatatatatgcatcattgtacaattaatttttttaatttttttagggtaaaaaatgaagactgtgatatagatccattaatttgatcttgtgtacttgtaaatatagGCATCACCAGCATGGGAGATGGCAAGCAAGGATAGGAAGAGTTGCAGGGAACAAGGACCTCTACTTGGGCACCTTCA
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----------------------------------------------------------gtaatgctcatgatc--aattcatatattttttcacttcggtcttttttcccagGCATCACCAGCAGGGAAGATGGCAAGCTCGGATCGGACGAGTTGCGGGGAATAAAGATCTGTACCTCGGAACTTTCA
upper sequence: LOC_Os01g67410.1 (Oryza sativa), 3'ss of exon 7
lower sequence: EFJ16224 (Selaginella moellendorffii), 3'ss of exon 4
gtacatatatatatgcatcattgtacaattaatttttttaatttttttagggtaaaaaatgaagactgtgatatagatccattaatttgatcttgtgtacttgtaaatatagGCATCACCAGCATGGGAGATGGCAAGCAAGGATAGGAAGAGTTGCAGGGAACAAGGACCTCTACTTGGGCACCTTCA
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----------------------------------------------------------gtaatgctcatgatc--aattcatatattttttcacttcggtcttttttcccagGCATCACCAGCAAGGAAGATGGCAAGCTCGGATCGGACGAGTTGCCGGGAATAAAGATCTGTACCTCGGAACTTTCAMapped 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|86850648|gb|CI309460.1|CI309460EST: AAGAGCAGTGGTTTCTCCAGAGGTGCATCCATCTACCGTGGAGTAACTAG GCATCACCAGCATGGGAGATGGCAAGCAAGGATAGGAAGAGTTGCAGGGAA
genomic: AAGAGCAGTGGTTTCTCCAGAGGTGCATCCATTTACCGTGGAGTAACTAGgtacatatat ... gtaaatatagGCATCACCAGCATGGGAGATGGCAAGCAAGGATAGGAAGAGTTGCAGGGAA
atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.aatgaagactgtgatatagatccattaatttgatcttgtgtacttgtaaatatagGCATCACCAGCATGGGAGATGGCAAGCAAGGATAGGAAGAGTTGCAGGGAACAAGGACCTCTACTTGGGCACCTTCA
attaatttgatctt 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gtacatatatatatgcatcattgtacaattaatttttttaatttttttagggtaaaaaatgaagactgtgatatagatccattaatttgatcttgtgtacttgtaaatatagGCATCACCAGCATGGGAGATGGCAAGCAAGGATAGGAAGAGTTGCAGGGAACAAGGACCTCTACTTGGGCACCTTCA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GGAAGA