Sequence
atgc intronic sequence ATGC exonic sequenceTCAGGAGAAAATTAAGTGGGCTGATACAATGAGTGAAGTGAACAAGAAGCACCAGAAAGAGTTCGAAGACAAGGTAGAAGAAGCCAAAAAATCAATCAAGgtgagttggatcaatttgaagcaccaactatactgtagtttttcagatattgaatgatgaacagtaaaaaaggaaaaaaaacttgcatctgttttgtttt...
Basic information
species | Oryza sativa |
transcript | LOC_Os07g30840.1 |
intron # | 7 |
splice site | 5' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: LOC_Os07g30840.4 (Oryza sativa), 5'ss of exon 7
lower sequence: GRMZM2G085670_T01 (Zea mays), 5'ss of exon 7
TCAGGAGAAAATTAAGTGGGCTGATACAATGAGTGAAGTGAACAAGAAGCACCAGAAAGAGTTCGAAGACAAGGTAGAAGAAGCCAAAAAATCAATCAAGgtgagttggatcaatttgaagcaccaactatactgtagtttttcagatattga--atgatgaacagtaaaaaaggaaaaaaaacttgcatctgttttgtttt-------------------------------------------------------------------------------------------------
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TCAGGAGAAAATCAAATGGGCTGACACAATGAGTGATGTGAACAAGAAGCACCAGAAAGAATTTGAAGACAGAGTGGAAGAGGCCAAAAAATCAATTAAGgtgagctagattaaactgaagcatttgtta-ggaataaatttgcatctgcttgtgatgagttatgctctgttttcttcattttcctacttctgccttactgcctcatgtttagatatataattattttttgagtgttcatataatggcaactactgtattaaatagtgttgccgaaccatgtttcttacttgatggcag
upper sequence: LOC_Os07g30840.4 (Oryza sativa), 5'ss of exon 7
lower sequence: GRMZM2G171745_T05 (Zea mays), 5'ss of exon 6
TCAGGAGAAAATTAAGTGGGCTGATACAATGAGTGAAGTGAACAAGAAGCACCAGAAAGAGTTCGAAGACAAGGTAGAAGAAGCCAAAAAATCAATCAAGgtgagttggatcaatttgaagcaccaactatactgtagtttttcagatattgaatgatgaacagtaaaaaaggaaaaaaaacttgcatctgttttgtttt--
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TCAGGAGAAAATCAAGTGGGCTGACACAATGAGTGAGGTGAACAAGAAGCACCAGAAAGAATTTGAAGACAGAGTGGAAGAGGCCAAAAAATCAATCAAGgtgagctggattgaattgaagcatttggtcttagtaagattgaagaaaaaggaataa--atttgcatattcttgtgatgagttatgctctgttatcctcatt
upper sequence: LOC_Os07g30840.4 (Oryza sativa), 5'ss of exon 7
lower sequence: GRMZM2G085670_T03 (Zea mays), 5'ss of exon 6
TCAGGAGAAAATTAAGTGGGCTGATACAATGAGTGAAGTGAACAAGAAGCACCAGAAAGAGTTCGAAGACAAGGTAGAAGAAGCCAAAAAATCAATCAAGgtgagttggatcaatttgaagcaccaactatactgtagtttttcagatattga--atgatgaacagtaaaaaaggaaaaaaaacttgcatctgttttgtttt
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TCAGGAGAAAATCAAATGGGCTGACACAATGAGTGATGTGAACAAGAAGCACCAGAAAGAATTTGAAGACAGAGTGGAAGAGGCCAAAAAATCAATTAAGgtgagctagattaaactgaagcatttgtta-ggaataaatttgcatctgcttgtgatgagttatgctctgttttcttcattttcctacttctgccttactg-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|88219553|gb|CI219113.1|CI219113EST: ACCAGAAAGAGTTCGAAGACAAGGTAGAAGAAGCCAAAAAATCAATCAAG CAGGCAGACATCGACTTACGGGGGCATGACGACTTTCTCTCTGAACCTGGA
genomic: ACCAGAAAGAGTTCGAAGACAAGGTAGAAGAAGCCAAAAAATCAATCAAGgtgagttgga ... acaatttaagCAGGCAGACATCGACTTACGGGGGCATGACGACTTTCTCTCTGAACCTGGA
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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
TCAGGAGAAAATTAAGTGGGCTGATACAATGAGTGAAGTGAACAAGAAGCACCAGAAAGAGTTCGAAGACAAGGTAGAAGAAGCCAAAAAATCAATCAAGgtgagttggatcaatttgaagcaccaactatactgtagtttttcagatattgaatgatgaacagtaaaaaaggaaaaaaaacttgcatctgttttgtttt
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - CGAAGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGAAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGAAGC
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - taaaaaa
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -aaaaaaa