Sequence
atgc intronic sequence ATGC exonic sequenceGTTTGGTGGCTGATATAGATATTGAGTCTGAGAAGTACAGGTGGATGGGAAGTGCACGCTTTGATTTCTATgtatgtatgcttttgttttcaacgttttcctttttatttttcaattctttactatatcatatctgtcatcaatggttactcatctacttgcacctttaca...
Basic information
species | Oryza sativa |
transcript | LOC_Os01g57350.1 |
intron # | 7 |
splice site | 5' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: LOC_Os01g57350.2 (Oryza sativa), 5'ss of exon 7
lower sequence: GLYMA15G07340.1 (Glycine max), 5'ss of exon 7
GTTTGGTGGCTGATATAGATATTGAGTCTGAGAAGTACAGGTGGATGGGAAGTGCACGCTTTGATTTCTATgtatgtatgcttttgttttcaacgttttcctttttatttttcaattctttactata-tcatatctgt-catcaatggttactcatctacttgcacctttaca
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GTCTGGTGGCAGATATTGACATTGAGTCTGAAAAGTACCGGTGGATGGGAAGTGCTCGTCTAGATTTTTATgtcagtagtccatt--ttataacttttgcatgtttattaatgatgtttttctttcacttatatgtgtgtctcttttatggattatcgttgcaattattttct
upper sequence: LOC_Os01g57350.2 (Oryza sativa), 5'ss of exon 7
lower sequence: GLYMA08G06300.1 (Glycine max), 5'ss of exon 7
GTTTGGTGGCTGATATAGATATTGAGTCTGAGAAGTACAGGTGGATGGGAAGTGCACGCTTTGATTTCTATgtatgtatgcttt----tgttttcaacgttttcctt-tttatttttcaattctttactatatcatatctgtcatcaatggttactcatctacttgcacctttaca
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GTCTGGTTGCTGATATTGATATCGAGTCTGAAAAGTATAGGTGGATGGGAAGTGCTCGTATTGATTTTTATgttagtaagccatgtaataagtaccatgacatgcttgtttatgatgcttttcttcattgt--tgtgtccttttatatgaattatctttgcattagttatctt---
upper sequence: LOC_Os01g57350.2 (Oryza sativa), 5'ss of exon 7
lower sequence: GLYMA13G31980.1 (Glycine max), 5'ss of exon 8
GTTTGGTGGCTGATATAGATATTGAGTCTGAGAAGTACAGGTGGATGGGAAGTGCACGCTTTGATTTCTATgtatgtatgcttttgttttcaacgttttcctttttatttttcaattctttactatatc---atatctgtcatcaat---ggttactcatctacttgcacctttaca
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------------ATATTGACATTGAGTCTGAAAAGTACCGGTGGATGGGAAGTGCTTGGCTAGATTTTTATgttagtaatccatt--ttataacttttacatgtttatttatgatgtttttctttcacttatatgtgtgtctcttatatggattattgttgcaattatcttct----
upper sequence: LOC_Os01g57350.2 (Oryza sativa), 5'ss of exon 7
lower sequence: AT4G21534.1 (Arabidopsis thaliana), 5'ss of exon 7
GTTTGGTGGCTGATATAGATATTGAGTCTGAGAAGTACAGGTGGATGGGAAGTGCACGCTTTGATTTCTATgtatgtatgctt--ttgtttt--caacgttttcctttttatttttcaattctttactatatcatatctgtcatc--aatggttactcatctacttgca----cctttaca-----------------
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GTTTAATAGCTGATATAGACATCGAGTCAGAGAAGTTCAGATGGATGGGAAGTGCTCGTATTGACTTTTATgtatgtttagttgacaaatttgacaattattgcattgcagttgttaaattgctggtgagactgtatgattctaccggatgttctcttattgaactgaagggatgtttttatcttcttggatttgcag
upper sequence: LOC_Os01g57350.2 (Oryza sativa), 5'ss of exon 7
lower sequence: AT4G21540.3 (Arabidopsis thaliana), 5'ss of exon 7
GTTTGGTGGCTGATATAGATATTGAGTCTGAGAAGTACAGGTGGATGGGAAGTGCACGCTTTGATTTCTATgtatgtatgcttttgttttcaacgttttcctt---tttatttttcaattctttactatatcatatctgtcatcaatggttactcatctacttgcacctttaca
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GTTTAGTGGCTGATATAGACATCGAGTCAGAGAAATTCAGATGGATGGgtagtgctcgctttgatatctatgtatgtttagttgaacatttgaaaattttctgcaatgcatgttttaata-tgcgttac-tcaactaagttactggtgga------------------------
upper sequence: LOC_Os01g57350.2 (Oryza sativa), 5'ss of exon 7
lower sequence: AT4G21540.1 (Arabidopsis thaliana), 5'ss of exon 7
GTTTGGTGGCTGATATAGATATTGAGTCTGAGAAGTACAGGTGGATGGGAAGTGCACGCTTTGATTTCTATgtatgtatgcttttgttttcaacgttttcctt---tttatttttcaattctttactatatcatatctgtcatcaatggttactcatctacttgcacctttaca----------------------------------------------------------------------------------
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GTTTAGTGGCTGATATAGACATCGAGTCAGAGAAATTCAGATGGATGGGTAGTGCTCGCTTTGATATCTATgtatgtttagttgaacatttgaaaattttctgcaatgcatgttttaata-tgcgttac-tcaactaagttactggtggaggttgaacaaaaaaaaaaaaaaaaagagattgtgtgtttctaactggatgctgttttcattcaactaaagaccttgcgttcactcttctacgacttgcatttgcag
upper sequence: LOC_Os01g57350.2 (Oryza sativa), 5'ss of exon 7
lower sequence: Vv00s0181g00250.t01 (Vitis vinifera), 5'ss of exon 7
GTTTGGTGGCTGATATAGATATTGAGTCTGAGAAGTACAGGTGGATGGGAAGTGCACGCTTTGATTTCTATgtatgtatgcttttgttttca-acgttttcctttttatt-tttcaatt-ctttactatatcatatctgtcatcaatggttactcatctacttgcacctttaca
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GTCTGGTGGCAGATATTGACATTGAGTCTGAAAAATATAGGTGGATGGGAAGTGCTCGTTTAGATTTCTACgtatgtcctgaaatatttccttatttcttatcttctatgacttcaattgcattaata-atcatatggaattttcctc-ttttataccatataatgtttctaa-Mapped 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|29665463|gb|CB661738.1|CB661738EST: TTGAGTCTGAGAAGTACAGGTGGATGGGAAGTGCACGCTTTGATTTCTAT GCTTTGGTTCGCATAATGAACTTGAGAAAATACTACGGAAGTATTCAGTAT
genomic: TTGAGTCTGAGAAGTACAGGTGGATGGGAAGTGCACGCTTTGATTTCTATgtatgtatgc ... actatttcagGCTTTGGTTCGCATAATGAACTTGAGAAAATACTACGGAAGTATTCAGTAT
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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
GTTTGGTGGCTGATATAGATATTGAGTCTGAGAAGTACAGGTGGATGGGAAGTGCACGCTTTGATTTCTATgtatgtatgcttttgttttcaacgttttcctttttatttttcaattctttactatatcatatctgtcatcaatggttactcatctacttgcacctttaca
- - - - - - - - - - - - - - - AGAAGT
- - - - - - - - - - - - - - - - - - - GGTGGA