Sequence
atgc intronic sequence ATGC exonic sequenceGCATTCTACTGACCGTGAGGTTGCCCTTATGATGCTCATGGCTTACCTTTCATATATGCTGGCTGAGgtgtgcctctgctttgatgcagtatcaaaatttgcatatagtttcattttatagtttgattttatctactttgtttgtttgatattggcag
Basic information
species | Oryza sativa |
transcript | LOC_Os07g47100.3 |
intron # | 9 |
splice site | 5' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: LOC_Os07g47100.2 (Oryza sativa), 5'ss of exon 8
lower sequence: GRMZM2G027851_T03 (Zea mays), 5'ss of exon 6
GCATTCTACTGACCGTGAGGTTGCCCTTATGATGCTCATGGCTTACCTTTCATATATGCTGGCTGAGgtgtgcctctgctttgatgcagtatcaaaatttgcatatagtttcattttatagtttgattttatctactttgtttgtttgatattggcag
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GCATTCCACTGACCGTGAGGTTGCGCTTATGATGCTCATGGCTTACCTCTCCTACATGCTGGCCGAGgtgcacctctgatcagatgtggcaagggaattcacgcttg---ttgtcttactctcttaactgactctgttcatatatatggcatttgcag
upper sequence: LOC_Os07g47100.2 (Oryza sativa), 5'ss of exon 8
lower sequence: GLYMA19G42900.1 (Glycine max), 5'ss of exon 8
GCATTCTACTGACCGTGAGGTTGCCCTTATGATGCTCATGGCTTACCTTTCATATATGCTGGCTGAGgtgtgcctctgctttgatgcagtatcaaaatttgcatatagtttcattttatagtttgattttatctactttgtttgtttgatattggcag-----------------
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GCACTCTACAGATCGTGAGGTTGCTCTTATGATGCTAATGGCATACCTTTCCTACATTCTGGCTGAAgtaagt-tttaaagaacttcagaa--atattttgtagagtatgtctttttgagctctatatctattttttcttgtgaaagggttctgatatatctacaagttctgcag
upper sequence: LOC_Os07g47100.2 (Oryza sativa), 5'ss of exon 8
lower sequence: GLYMA07G38160.1 (Glycine max), 5'ss of exon 8
GCATTCTACTGACCGTGAGGTTGCCCTTATGATGCTCATGGCTTACCTTTCATATATGCTGGCTGAGgtgtgcctctgctttgatgcagtatcaaaatttgcatatagtttcattttatagtttgattttatctactttgtttgtttgatattggcag
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GCATTCTACAGACCGTGAGGTTGCTCTCATGGTACTCATGGCATACCTTTCGTATATGCTGTCTGAGgtaagaattttctctgaaacttggccacctttttagtgtaaat--------aattcccatgctaaccgatttatttctttgacag------
upper sequence: LOC_Os07g47100.2 (Oryza sativa), 5'ss of exon 8
lower sequence: GLYMA17G02560.1 (Glycine max), 5'ss of exon 7
GCATTCTACTGACCGTGAGGTTGCCCTTATGATGCTCATGGCTTACCTTTCATATATGCTGGCTGAGgtgtgcctctgctttgatgcagtatcaaaatttgcatatagtttcattttatagtttgattttatctactttgtttgtttgatattggcag
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GCATTCTACAGACCGTGAGGTTGCTCTCATGGTACTCATGGCATACCTTTCATATATGCTATCTGAAgtaagaaaattctctgaaactcgacccac-cacctttgtagtgtaaa---aaattccaatgctaaccaatttatttctttggcag------
upper sequence: LOC_Os07g47100.2 (Oryza sativa), 5'ss of exon 8
lower sequence: GLYMA03G40290.1 (Glycine max), 5'ss of exon 8
GCATTCTACTGACCGTGAGGTTGCCCTTATGATGCTCATGGCTTACCTTTCATATATGCTGGCTGAGgtgtgcctctg----ctttgatgcagtatcaaaatttgcatatagtttca-ttttatagtttgattttatc-tactttgtttgtttgatattggcag-------------------
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GCACTCTACAGATCGTGAGGTTGCTCTTATGATGCTAATGGCATACCTTTCCTACATTCTGGCTGAAgtaagttttaaagaacttcagaaatgttctgtacagtatgtcttttttgagctctatatctattttttgttgtggtacattcattaatcattaacgggttctgatatattctgcag
upper sequence: LOC_Os07g47100.2 (Oryza sativa), 5'ss of exon 8
lower sequence: AT3G06370.1 (Arabidopsis thaliana), 5'ss of exon 9
GCATTCTACTGACCGTGAGGTTGCCCTTATGATGCTCATGGCTTACCTTTCATATATGCTGGCTGAGgtgtgcctctgctttgatgcagtatcaaaatttgcatatagtttcattttata-gtttgattttatctactttgtttgtttgatattggcag
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GCACTCTACTGATCGTGAAGTTGCACTTATGATGCTATTGGCTTACTTATCATATATGTTGGCAGAGgtaa----------taagaaaaatttgaaacgt---tttggttacattttttccaacagaaaatgaaaacatgatacatatatcctttgcag
upper sequence: LOC_Os07g47100.2 (Oryza sativa), 5'ss of exon 8
lower sequence: AT5G27150.1 (Arabidopsis thaliana), 5'ss of exon 9
GCATTCTACTGACCGTGAGGTTGCCCTTATGATGCTCATGGCTTACCTTTCATATATGCTGGCTGAGgtgtgcctctgctttgatgcagtatcaaaatttgcatatagtttcattttatagtttgattttatc--tactttgtttgtttgatattggcag
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GCACTCAACTGACCGAGAGGTTGCCCTTATGATGCTTATGGCGTATCTTTCTTATATGCTTGCTGAGgttagattc---ttttaaataacacgaacatattcattcagttgcattcaa-acacaaattatattgatgttatattaatttggttgcag---
upper sequence: LOC_Os07g47100.2 (Oryza sativa), 5'ss of exon 8
lower sequence: AT3G05030.2 (Arabidopsis thaliana), 5'ss of exon 5
GCATTCTACTGACCGTGAGGTTGCCCTTATGATGCTCATGGCTTACCTTTCATATATGCTGGCTGAGgtgtgcctct----gctttgatgcagtatcaaaatttgcatatagtttcattttatagtttgattttatctactttgtttgtttgatattggcag--------
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GCACTCGACTGATCGAGAAGTTGCCCTCATGATGCTTATGGCTTATCTTTCATATATGCTTGCTGAGgttagttttgtgaaattttataccactgtcataatttaggcatggagacaatcagttgtatc-ttaagaatcctttattgataatatattgtttgggttgcag
upper sequence: LOC_Os07g47100.2 (Oryza sativa), 5'ss of exon 8
lower sequence: Vv07s0104g01280.t01 (Vitis vinifera), 5'ss of exon 8
GCATTCTACTGACCGTGAGGTTGCCCTTATGATGCTCATGGCTTACCTTTCATATATGCTGGCTGAGgtgtg-----cctctgct-ttgatgcagtatca--aaatttgcatatagtttcattt----tatagtttgatt-ttatctact--ttgtttgtttgatattggcag---------------------------------------------------------
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GCACTCTACTGATCGTGAAGTTGCACTTATGATTGTCATGGCTTACCTTTCATACATTATGGCTGAAgtaagatttctttctacccttcaagcacctttataagaatctcatcaagttctgtttgaaatatacaaggactatcatcatccaattctgtgctttataaggattattatcatccacttctgtgctttactgatagtgtttataaattctgttcatcatccag
upper sequence: LOC_Os07g47100.2 (Oryza sativa), 5'ss of exon 8
lower sequence: Vv05s0020g01960.t01 (Vitis vinifera), 5'ss of exon 9
GCATTCTACTGACCGTGAGGTTGCCCTTATGATGCTCATGGCTTACCTTTCATATATGCTGGCTGAGgtgtg----cctctgctttgatgcagtatcaaaatttg-----catatagtttcattttatagtttgattttatctactttgtttgt-----ttgatattggcag-----------------
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GCATTCGACTGATCGGGAGGTTGCAATCATGATACTCATGGCTTACCTTTCGTATATGCTGGCTGAAgtaagatatcccacaacttgctgggaaatccttccctgacccctgtttgctctttatttatactcttgagccccaaaataagcacatggaccttaattttggaattgttatttgtcttacag
upper sequence: LOC_Os07g47100.2 (Oryza sativa), 5'ss of exon 8
lower sequence: Vv14s0030g00710.t01 (Vitis vinifera), 5'ss of exon 8
GCATTCTACTGACCGTGAGGTTGCCCTTATGATGCTCATGGCTTACCTTTCATATATGCTGGCTGAGgtgtgcctctgctttgatgcagtatcaaaattt--gcatatagtttcattttatagtttg-attttatctactttgtttgtttgatattggcag---------------------------------------------
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GCACTCTACTGATCGGGAGGTTGCCCTTATGATGCTTATGGCATACCTTTCCTACATACTTGCTGAAgtaagatttcttttaacttcttgggcacttccctggcccctgttgtctattggcattgagtgttctatttagattcaacagtagatat-atcaatcatttaaagtctttccattgttagtaactttggttgtcctgcagMapped 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|27549114|gb|CA767092.2|CA767092EST: AGGTTGCCCTTATGATGCTCATGGCTTACCTTTCATATATGCTGGCTGAG TTGCTAGATTTGAGCGGCATTCTCACCGTATTCTTCTGTGGTATTGTAATG
genomic: AGGTTGCCCTTATGATGCTCATGGCTTACCTTTCATATATGCTGGCTGAGgtgtgcctct ... atattggcagTTGCTAGATTTGAGCGGCATTCTCACCGTATTCTTCTGTGGTATTGTAATG
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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
GCATTCTACTGACCGTGAGGTTGCCCTTATGATGCTCATGGCTTACCTTTCATATATGCTGGCTGAGgtgtgcctctgctttgatgcagtatcaaaatttgcatatagtttcattttatagtttgattttatctactttgtttgtttgatattggcag
- - - - - - - - - - - - - - - - - - - - - - - - - - - ATGCTG