Sequence
atgc intronic sequence ATGC exonic sequenceGTCTGGTAGCTGATATCGATATTGAGTCAGAGAAGTACAGGTGGATGGGCAGTGCTCGTCTTGACTTCTATgtatgcattctaccataactctatcaaacactcaattatatccatatgctttctctcctctctctttcctctcctttatttatgtggtcctcatggtcag...
Basic information
species | Oryza sativa |
transcript | LOC_Os07g37580.1 |
intron # | 7 |
splice site | 5' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: LOC_Os07g37580.3 (Oryza sativa), 5'ss of exon 3
lower sequence: GRMZM2G057475_T03 (Zea mays), 5'ss of exon 7
GTCTGGTAGCTGATATCGATATTGAGTCAGAGAAGTACAGGTGGATGGGCAGTGCTCGTCTTGACTTCTATgtatgcattcta-ccataactctatcaaacactcaattatatccatatgctttctctcctctctctttcctctcctttatttatgtggtcctcatggtcag
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GTCTGGTGGCTGATGTTGATATTGAATCGGAGAAGTATAGGTGGATGGGAAGTGCTCGCCTTGAATTTTATgtatactttctatccttaaagcttgtaccaacctttttttaaaaaaacttatatcaactacttgattttatttttcatatctatatgcttctc-tgtcctt
upper sequence: LOC_Os07g37580.3 (Oryza sativa), 5'ss of exon 3
lower sequence: GLYMA15G07340.1 (Glycine max), 5'ss of exon 7
GTCTGGTAGCTGATATCGATATTGAGTCAGAGAAGTACAGGTGGATGGGCAGTGCTCGTCTTGACTTCTATgtatgcattctaccataactctatcaaacactcaattatatccatatgctttctctcctctctctttcctctcctttatttat-gtggtcctcatggtcag
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GTCTGGTGGCAGATATTGACATTGAGTCTGAAAAGTACCGGTGGATGGGAAGTGCTCGTCTAGATTTTTATgtcagtagtccattttataacttttgcatgtttattaatgatgtttttctttcacttatatgtgtgtctcttttatggattatcgttgcaattattttct-
upper sequence: LOC_Os07g37580.3 (Oryza sativa), 5'ss of exon 3
lower sequence: GLYMA08G06300.1 (Glycine max), 5'ss of exon 7
GTCTGGTAGCTGATATCGATATTGAGTCAGAGAAGTACAGGTGGATGGGCAGTGCTCGTCTTGACTTCTATgtatgcattctacc--ataact-ctatcaaacactcaattatatccatatgctttctctcctctctctttcctctcctttatttatgtggtcctcatggtcag
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GTCTGGTTGCTGATATTGATATCGAGTCTGAAAAGTATAGGTGGATGGGAAGTGCTCGTATTGATTTTTATgttagtaagccatgtaataagtaccatgacatgcttgtttatgatgcttttcttcattgttgtgtccttttatatgaattatctttgcattagttatctt---
upper sequence: LOC_Os07g37580.3 (Oryza sativa), 5'ss of exon 3
lower sequence: AT4G21534.1 (Arabidopsis thaliana), 5'ss of exon 7
GTCTGGTAGCTGATATCGATATTGAGTCAGAGAAGTACAGGTGGATGGGCAGTGCTCGTCTTGACTTCTATgtatgc-----------attctaccataactctat--caaacactcaatta-tatccatatgctttctctcctctctctttcctctcctttatttatgtggtcctcatggtcag-------------
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GTTTAATAGCTGATATAGACATCGAGTCAGAGAAGTTCAGATGGATGGGAAGTGCTCGTATTGACTTTTATgtatgtttagttgacaaatttgacaattattgcattgcagttgttaaattgctggtgagactgtatgattctaccggatgttctcttattgaactgaagggatgtttttatcttcttggatttgcagMapped 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|218479329|gb|FG969597.1|FG969597EST: TTGAGTCAGAGAAGTACAGGTGGATGGGCAGTGCTCGTCTTGACTTCTAT TCCCTTCTCCGTGTGGTGAGCTTGCGGCGGTACAATGGGCGTGTTCTTTTT
genomic: TTGAGTCAGAGAAGTACAGGTGGATGGGCAGTGCTCGTCTTGACTTCTATgtatgcattc ... tttatttcagTCCCTTCTCCGTGTGGTGAGCTTGCGGCGGTACAATGGGCGTGTTCTTTTT
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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
GTCTGGTAGCTGATATCGATATTGAGTCAGAGAAGTACAGGTGGATGGGCAGTGCTCGTCTTGACTTCTATgtatgcattctaccataactctatcaaacactcaattatatccatatgctttctctcctctctctttcctctcctttatttatgtggtcctcatggtcag
- - - - - - - - - - - - - - - AGAAGT
- - - - - - - - - - - - - - - - - - - GGTGGA