Sequence
atgc intronic sequence ATGC exonic sequencegtgagtgcctaccgcgttttgggatccatttgtttaaagtgtttaacgattattgggatgattggattaatcaagtcttgttggtttattattttagGCCTCAGGTCTCTTCGGCGCTGTTCTTCAGCTACAACACAGCGCTCGGGCCGCCATACCGGGTTATTGTGGATACAAACTTCATCAATTTCTCCATCCAG
Basic information
| species | Oryza sativa |
| transcript | LOC_Os06g06410.2 |
| intron # | 2 |
| splice site | 3' |
| intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: LOC_Os06g06410.1 (Oryza sativa), 3'ss of exon 2
lower sequence: GRMZM2G140689_T01 (Zea mays), 3'ss of exon 2
gtgagtgcctaccgcgttttgggatccatttgtttaaagtgtttaacgattattgggat-gattggattaatcaagtcttgttggtttattattt-tagGCCTCAGGTCTCTTCGGCGCTGTTCTTCAGCTACAACACAGCGCTCGGGCCGCCATACCGGGTTATTGTGGATACAAACTTCATCAATTTCTCCATCCAG
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--------------------gtgagtgttgtgtttgcgctcggaatggtttcctgtgcttgtttggattgttgatgttgttttcttctgtgatttacagGCCGCAGGTTTCGTCGGCGTTGTTCTTCAGCTACAACACAGCATTGGGGCCGCCGTATCGGGTGATTGTGGATACCAACTTCATCAATTTCTCGATACAG
upper sequence: LOC_Os06g06410.1 (Oryza sativa), 3'ss of exon 2
lower sequence: GRMZM2G017761_T01 (Zea mays), 3'ss of exon 2
gtgagtgcctaccgcgttttgggatccatttgtttaaagtgtttaacgattattgggatgattggattaatcaagtcttgttggtttattattt-tagGCCTCAGGTCTCTTCGGCGCTGTTCTTCAGCTACAACACAGCGCTCGGGCCGCCATACCGGGTTATTGTGGATACAAACTTCATCAATTTCTCCATCCAG
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gtgagtgtttgtt-tgcgctcggattggtttcct----gtgctt---------------gtttggattgttgatgttgttttcttctgtgatttacagGCCGCAGGTTTCGTCGGCGTTGTTCTTCAGCTACAACACAGCATTGGGGCCGCCGTATCGGGTGATTGTGGATACCAACTTCATCAATTTCTCGATACAG
upper sequence: LOC_Os06g06410.1 (Oryza sativa), 3'ss of exon 2
lower sequence: GRMZM2G016330_T02 (Zea mays), 3'ss of exon 2
gtgagtgcctaccgcgttttgggatccatttgtttaaagtgtttaacgattattgggat-gattggattaatcaagtcttgttggtttattattt-tagGCCTCAGGTCTCTTCGGCGCTGTTCTTCAGCTACAACACAGCGCTCGGGCCGCCATACCGGGTTATTGTGGATACAAACTTCATCAATTTCTCCATCCAG
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--------------------gtgagtgttgtgtttgcgctcggaatggtttcctgtgcttgtttggattgttgatgttgttttcttctgtgatttacagGCCGCAGGTTTCGTCGGCGTTGTTCTTCAGCTACAACACAGCATTGGGGCCACCGTATCGGGTGATTGTGGATACCAACTTCATCAATTTCTCGATACAG
upper sequence: LOC_Os06g06410.1 (Oryza sativa), 3'ss of exon 2
lower sequence: GLYMA19G44090.1 (Glycine max), 3'ss of exon 2
gtgagtgcctaccgcgttttgggatccatt-tgtttaaagtgtttaacgattattgggatgattggattaatcaagtcttgttggtttattattttagGCCTCAGGTCTCTTCGGCGCTGTTCTTCAGCTACAACACAGCGCTCGGGCCGCCATACCGGGTTATTGTGGATACAAACTTCATCAATTTCTCCATCCAG-
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-------------gtttcttctgattccttgtgaatgtatcgttttccctcttttaatttatttt--ttggtttgaatttgc------attattt-agTCCAAGTCATTCCTCGGCCCTTTTTTTCAA-TACAATACTGCATTGGGACCCCCTTACCGTATTTTAGTGGATACCAACTTCATCAATTTTTCCATCCAGAMapped 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|86502684|gb|CI145317.1|CI145317EST: TTGAACCCCAAGAAGAAGGATAACGAGAAGGAGAAGCTCGGGCGGAATGT GCCTCAGGTCTCTTCGGCGCTGTTCTTCAGCTACAACACAGCGCTCGGGCC
genomic: TTGAACCCCAAGAAGAAGGATAACGAGAAGGAGAAGCTCGGGCGGAATGTgtgagtgcct ... attattttagGCCTCAGGTCTCTTCGGCGCTGTTCTTCAGCTACAACACAGCGCTCGGGCC
atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.ttaacgattattgggatgattggattaatcaagtcttgttggtttattattttagGCCTCAGGTCTCTTCGGCGCTGTTCTTCAGCTACAACACAGCGCTCGGGCCGCCATACCGGGTTATTGTGGATACAAACTTCATCAATTTCTCCATCCAG
gattaat putative branch site (score: 3)
ttatttt putative PPT
ttggtttattatttta TA-rich tract
