Sequence
atgc intronic sequence ATGC exonic sequencegtaaaggaaaaaccactgcttccgaactgaagggtgcggtagtgtcgaaataaagaccacaccgcttctcattcaatacgagtattcaattctcttgtatcactatcacagGGCGTCGAGTACGGGAGGCAAGCTCCCGTGGCATCGTCCACTCTGGTCGAACTGACGACCAGGCTAGATTTCTTCAAAGAACGGCGGTCACAATTAATGG
Basic information
species | Oryza sativa |
transcript | LOC_Os07g46450.2 |
intron # | 15 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: LOC_Os07g46450.1 (Oryza sativa), 3'ss of exon 21
lower sequence: GRMZM2G036872_T01 (Zea mays), 3'ss of exon 21
gtaaaggaaaaaccactgcttccgaactgaagggtgcggtagtgtcgaaataaagaccacaccgcttctcattcaatacgagtattcaattctcttgtatcactatca-cagGGCGTCGAGTACGGGAGGCAAGCTCCCGTGGCATCGTCCACTCTGGTCGAACTGACGACCAGGCTAGATTTCTTCAAAGAACGGCGGTCACAATTAATGG
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gtaagagaaaccccctagttattttgctgcac----taacatttttctggtaaaaaatac-----------ttaggtttgagttttcaatctcctgttgtgatttgcagcagGGTGTCGAATATGGGAGACCGCCGTCTGTGTCGTCATCCACTCTGGTTGAACTAACAACCAGGCTAGATTTCTTCAAAGAACGGCGGTCACAATTGATGG
upper sequence: LOC_Os07g46450.1 (Oryza sativa), 3'ss of exon 21
lower sequence: GRMZM2G340359_T02 (Zea mays), 3'ss of exon 21
gtaaaggaaaaaccactgcttccgaactgaagggtgcggtagtgtcgaaataaagaccacaccgcttctcattcaatacgagtattcaattctcttgtatcactatca-cagGGCGTCGAGTACGGGAGGCAAGCTCCCGTGGCATCGTCCACTCTGGTCGAACTGACGACCAGGCTAGATTTCTTCAAAGAACGGCGGTCACAATTAATGG
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-----gtaagagaaaccccttgtggttattatgctgcaataacgttttcagaaaaaa-aaaacgc------tttggtttgagttttcaatctcttgttgtggtttgcagcagGGTGTTGAATACGGGAGACCTCCGACTGTGCCGTCATCTACTCTAGTTGAACTAACAACCAGGCTAGATTTCTTCAAAGAACGGCGGTCACAATTGATGG
upper sequence: LOC_Os07g46450.1 (Oryza sativa), 3'ss of exon 21
lower sequence: GRMZM2G036872_T02 (Zea mays), 3'ss of exon 21
gtaaaggaaaaaccactgcttccgaactgaagggtgcggtagtgtcgaaataaagaccacaccgcttctcattcaatacgagtattcaattctcttgtatcactatca-cagGGCGTCGAGTACGGGAGGCAAGCTCCCGTGGCATCGTCCACTCTGGTCGAACTGACGACCAGGCTAGATTTCTTCAAAGAACGGCGGTCACAATTAATGG
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gtaagagaaaccccctagttattttgctgcac----taacatttttctggtaaaaaatac-----------ttaggtttgagttttcaatctcctgttgtgatttgcagCAGGGTGTCGAATATGGGAGACCGCCGTCTGTGTCGTCATCCACTCTGGTTGAACTAACAACCAGGCTAGATTTCTTCAAAGAACGGCGGTCACAATTGA---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|218499410|gb|FG963726.1|FG963726EST: TGCCAGCGGATGGCAATTCCATGTCCGTGAACATCCCGAAGGCAACCGAG GGCGTCGAGTACGGGAGGCAAGCTCCCGTGGCATCGTCCACTCTGGTCGAA
genomic: TGCCAGCGGATGGCAATTCCATGTCCGTGAACATCCCGAAGGCAACCGAGgtaaaggaaa ... actatcacagGGCGTCGAGTACGGGAGGCAAGCTCCCGTGGCATCGTCCACTCTGGTCGAA
atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.ccacaccgcttctcattcaatacgagtattcaattctcttgtatcactatcacagGGCGTCGAGTACGGGAGGCAAGCTCCCGTGGCATCGTCCACTCTGGTCGAACTGACGACCAGGCTAGATTTCTTCAAAGAACGGCGGTCACAATTAATGG
tattcaatt TA-rich tract
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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gtaaaggaaaaaccactgcttccgaactgaagggtgcggtagtgtcgaaataaagaccacaccgcttctcattcaatacgagtattcaattctcttgtatcactatcacagGGCGTCGAGTACGGGAGGCAAGCTCCCGTGGCATCGTCCACTCTGGTCGAACTGACGACCAGGCTAGATTTCTTCAAAGAACGGCGGTCACAATTAATGG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAAGAA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGAAC