Sequence
atgc intronic sequence ATGC exonic sequenceTCACACTGTACACTGTTGCACTCTCAAAGGCACAGATTGTACTCCGGGATCATGTTAAGCAGGCTGTTCCATCAACATGGGAACCTGCTGCATTAGCAAGgttagattcaatttgagtccacgctccatgtggtgatttaaattctgaatgaaaagttgaaaacttagtatttatatccttcagaaaaatcacattaggt...
Basic information
species | Oryza sativa |
transcript | LOC_Os07g07194.1 |
intron # | 3 |
splice site | 5' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: LOC_Os07g07194.2 (Oryza sativa), 5'ss of exon 3
lower sequence: GRMZM2G435034_T01 (Zea mays), 5'ss of exon 2
TCACACTGTACACTGTTGCACTCTCAAAGGCACAGATTGTACTCCGGGATCATGTTAAGCAGGCTGTTCCATCAACATGGGAACCTGCTGCATTAGCAAGgttagattca-atttgagtccacgctccatgtggtgatttaaattctgaatgaaaagttga--aaacttagtatttatatccttcagaaaaatc---acattaggt
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TCACACTATACAGTGTTGCGCTCTCAAAAGGGCAAATTGTACTCCGGGATCATGTTAAACAGTCTGTTCCATCAACCTGGGATCCTGCCGCTTTGGCAAGgttagatccatacctgaatctacagtt----ttgacattcgttacttaaaagagtagttcattgaatgtaagata-aaacacttcatattaatctctaccttcag-
upper sequence: LOC_Os07g07194.2 (Oryza sativa), 5'ss of exon 3
lower sequence: AT4G24290.2 (Arabidopsis thaliana), 5'ss of exon 3
TCACACTGTACACTGTTGCACTCTCAAAGGCACAGATTGTACTCCGGGATCATGTTAAGCAGGCTGTTCCATCAACATGGGAACCTGCTGCATTAGCAAGgttagattcaatttgagtccacgctccatgtggtgatttaaattctgaatgaaaagttgaaaactta-gtatttatatccttcagaaaaatcacatta-ggt------
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TCTCATTATACTCGGTGGCTTTGGACAAATCTCAAGTGTTACTCCGTGAGCATGTTAAGCAGGCTGTTCCATCAACATGGGACCCTGCTGCATTGGCAAGgtgatgttctgtcttcataataggattgtatg--tatgtaaagtct--atggaaagtt----acttacatctgcatatttttctgtgaaattgttcgatggtcgtttc
upper sequence: LOC_Os07g07194.2 (Oryza sativa), 5'ss of exon 3
lower sequence: Vv07s0031g03060.t01 (Vitis vinifera), 5'ss of exon 2
TCACACTGTACACTGTTGCACTCTCAAAGGCACAGATTGTACTCCGGGATCATGTTAAGCAGGCTGTTCCATCAACATGGGAACCTGCTGCATTAGCAAGgttagattcaa--tttgagtccacgctccatgtggtgatttaaattctgaatgaaaagttgaaaacttagtatttatatccttcagaaaaatcacattaggt--
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TAACAACTTACAACATTGCATTAGAAAAATCCCAGATAGTACTGCGTAATCATGTTAAACAAGCCGTCCCATCAACATGGGATCCTGCTGCATTGACAAGgtgagcctatggctttcagttttttatgtttatgttgagtt---tactgccttttactttcttttgccagtctttccatctcagatttcacttgc-ttaactgt
upper sequence: LOC_Os07g07194.2 (Oryza sativa), 5'ss of exon 3
lower sequence: Vv12s0035g01040.t01 (Vitis vinifera), 5'ss of exon 3
TCACACTGTACACTGTTGCACTCTCAAAGGCACAGATTGTACTCCGGGATCATGTTAAGCAGGCTGTTCCATCAACATGGGAACCTGCTGCATTAGCAAGgttagattcaatttgagtccacgctccatgtggtgatttaaattctgaatgaaaagttgaaaacttagtatttatatcc----ttcagaaaaatcacattaggt
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TCACACTCTACACTGTTGCACTAGAGAAATCACAGATGGTACTTCGTGAACATGTTAAGAACGCTGTTCCATCATCATGGGATCCTGCTGCCTTGGCAAGgtagagcttgaatct--cccaaaaaaaagagtattttctatggcatga-taaaagtctggacattttatgtgcaaagctaagtttcaaaagcttctatttttg-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|2428608|gb|C73071.1|C73071EST: CATGTTAAGCAGGCTGTTCCATCAACATGGGAACCTGCTGCATTAGCAAG GTTTATTAGAAAGTTTGGTACTCATGTAGTTGTTGGTATAAAAATGGGAGG
genomic: CATGTTAAGCAGGCTGTTCCATCAACATGGGAACCTGCTGCATTAGCAAGgttagattca ... actcttacagGTTTATTAGAAAGTTTGGTACTCATGTAGTTGTTGGTATAAAAATGGGAGG
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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
TCACACTGTACACTGTTGCACTCTCAAAGGCACAGATTGTACTCCGGGATCATGTTAAGCAGGCTGTTCCATCAACATGGGAACCTGCTGCATTAGCAAGgttagattcaatttgagtccacgctccatgtggtgatttaaattctgaatgaaaagttgaaaacttagtatttatatccttcagaaaaatcacattaggt
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GCTGTT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TGCTGC
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGCAAG