Sequence
atgc intronic sequence ATGC exonic sequencegtaagttctgaccaggcatatcttgggactaaagttttggcaagaaaggagataatgaaaatttcatttcgcatgcagATACCACAACGTGAACATCAATGTTGCTGTACAGACTGAGCATGGACTGTTTGTTCCAGTAATCAGG
Basic information
species | Oryza sativa |
transcript | LOC_Os07g22720.2 |
intron # | 14 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: LOC_Os07g22720.2 (Oryza sativa), 3'ss of exon 14
lower sequence: GRMZM2G015132_T01 (Zea mays), 3'ss of exon 13
gtaagttctgaccaggcatatct--tgggactaaagttt---------tggcaagaaaggagataatgaaaatttcatttcgcatgcagATACCACAACGTGAACATCAATGTTGCTGTACAGACTGAGCATGGACTGTTTGTTCCAGTAATCAGG
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gtaagttcctatggttcatttgtactgggaagatattttattatctcatggcctagaacagttaaatatgacacttatttctggtacagATACCACAATGTGAACATCAACGTGGCTGTACAGACTGAACATGGATTGTTTGTTCCAGTAATTAGG
upper sequence: LOC_Os07g22720.2 (Oryza sativa), 3'ss of exon 14
lower sequence: GRMZM2G161969_T01 (Zea mays), 3'ss of exon 9
gtaagttctgaccaggcatatct--tggga-----ctaaagttttg-gcaagaaaggagataatgaaaat-ttcatttcgcatgcagATACCACAACGTGAACATCAATGTTGCTGTACAGACTGAGCATGGACTGTTTGTTCCAGTAATCAGG
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gtaagttcatatggttcatttgtactggaaaggtcctattatctcgtaccctagagcagttaaaaatggcacttatttctggtacagATATCACAATGTGAACATCAACGTGGCTGTGCAGACTGAACACGGATTGTTTGTTCCAGTAATTAGG
upper sequence: LOC_Os07g22720.2 (Oryza sativa), 3'ss of exon 14
lower sequence: Vv09s0002g01800.t01 (Vitis vinifera), 3'ss of exon 15
gtaagttctgaccaggcatatcttgggactaaagttttggcaagaaaggagataa----tgaaaatttcatttcgc-------atgcagATACCACAACGTGAACATCAATGTTGCTGTACAGACTGAGCATGGACTGTTTGTTCCAGTAATCAGG
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gtaagtaatagatct-tagatgttaacattgctatttaattaccatatcacatacactcttaacatttttctttttgggactaatccagGTACCACAATGTGAATATCAATGTTGCTGTGCAGACGGATAATGGACTCTTTGTCCCCGTCATCAAGMapped 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|58680453|gb|CK069140.1|CK069140EST: CGAAAGGTCCCTCAGTGTAATAGCTCCTGGATGAATGATTTTATCCGCCA ATACCACAACGTGAACATCAATGTTGCTGTACAGACTGAGCATGGACTGTT
genomic: CGAAAGGTCCCTCAGTGTAATAGCTCCTGGATGAATGATTTTATCCGCCAgtaagttctg ... tcgcatgcagATACCACAACGTGAACATCAATGTTGCTGTACAGACTGAGCATGGACTGTT
EST:
gi|55410697|gb|CV723073.1|CV723073EST: CGAAAGGTCCCTCAGTGTAATAGCTCCTGGATGAATGATTTTATCCGCCA ATACCACAACGTGAACATCAATGTTGCTGTACAGACTGAGCATGGACTGTT
genomic: CGAAAGGTCCCTCAGTGTAATAGCTCCTGGATGAATGATTTTATCCGCCAgtaagttctg ... tcgcatgcagATACCACAACGTGAACATCAATGTTGCTGTACAGACTGAGCATGGACTGTT
atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.tgggactaaagttttggcaagaaaggagataatgaaaatttcatttcgcatgcagATACCACAACGTGAACATCAATGTTGCTGTACAGACTGAGCATGGACTGTTTGTTCCAGTAATCAGG
gactaaa putative branch site (score: 2)
tttcatttc putative PPT
ataatgaaaatttcat 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
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gtaagttctgaccaggcatatcttgggactaaagttttggcaagaaaggagataatgaaaatttcatttcgcatgcagATACCACAACGTGAACATCAATGTTGCTGTACAGACTGAGCATGGACTGTTTGTTCCAGTAATCAGG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - CATGGA