Sequence
atgc intronic sequence ATGC exonic sequence...gtcacaaaagtagtatatacaatgcttctgaacattcttgtacaattgcataattcatgtattactagtacctagcaataaaatttgccttttgttgcagATTCTGATCATGGGGAACAGGGATGACATCGATGAGATGTCCGCTGGCAATGCAAGCGTCCTCACCACTGTCCTGAAGCTGATCGACAAGTATGATCTGT
Basic information
species | Oryza sativa |
transcript | LOC_Os01g69030.3 |
intron # | 6 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: LOC_Os01g69030.1 (Oryza sativa), 3'ss of exon 7
lower sequence: GRMZM2G140107_T01 (Zea mays), 3'ss of exon 7
-gtcacaaaagtagtatataca-atgcttctgaacattcttgtacaattgcataattcatgtattactagtacctagcaataaaatttgccttttgttgcagATTCTGATCATGGGGAACAGGGATGACATCGATGAGATGTCCGCTGGCAATGCAAGCGTCCTCACCACTGTCCTGAAGCTGATCGACAAGTATGATCTGT
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ctccttatctctaacagacatatatgaaacctactggttctgaacatcattacagtagctgcatg--tattgccatgtaatggacattttccttgctttcagACTCTAATCATGGGAAACAGAGATGACATCGACGATATGTCTGCTGGCAATGCCAGTGTCCTCACCACAGTTCTGAAGCTGATAGACAAGTATGATCTGT
upper sequence: LOC_Os01g69030.1 (Oryza sativa), 3'ss of exon 7
lower sequence: GRMZM5G875238_T01 (Zea mays), 3'ss of exon 6
-----------------------------------------------------------------------------------------------gtcacaaaagtagtatatacaatgcttctgaac--attcttgtacaattgcataattcatgtattac---tagtacctagcaataaaatttgccttttgttgcagATTCTGATCATGGGGAACAGGGATGACATCGATGAGATGTCCGCTGGCAATGCAAGCGTCCTCACCACTGTCCTGAAGCTGATCGACAAGTATGATCTGT
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gtaagaaacaccgaagtgcactcatataatttcattgctactaatgtttataatttgtatgcccaaataactagtgctaccatgaccacaatgcaggaatacttttcttatctctagcacacctacatgaaaccttctgatcctgaacaatgcagtagctgcatgtattaccatgtgatgaagttt-tcttctgtttcagACTCTGATCATGGGTAACAGAGATGACATCGACGACATGTCTGCTGGCAATGCCAGTGTCCTCACCACAGTTCTGAAGCTGATTGACAAGTATGATCTGT
upper sequence: LOC_Os01g69030.1 (Oryza sativa), 3'ss of exon 7
lower sequence: GLYMA14G03300.1 (Glycine max), 3'ss of exon 6
gtcacaaaagtagtatatacaatgcttctgaacatt-cttgtacaattgcataattcatgtattactagtacctagcaataaaatttgccttttgttgcagATTCTGATCATGGGGAACAGGGATGACATCGATGAGATGTCCGCTGGCAATGCAAGCGTCCTCACCACTGTCCTGAAGCTGATCGACAAGTATGATCTGT
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--------gtaagttgacataattcaactgctcagtacttggtgggaactatggttgaga----acttgtaaaaaggactaa----tatgttttcaaacagACGCTTATAATGGGAAACAGGGATGACATAGATGAAATGTCCTCTGGCAATGCTAGTGTGCTCACAACAGTGTTGAAATTGATTGATAAGTATGACCTGT atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.ttgcataattcatgtattactagtacctagcaataaaatttgccttttgttgcagATTCTGATCATGGGGAACAGGGATGACATCGATGAGATGTCCGCTGGCAATGCAAGCGTCCTCACCACTGTCCTGAAGCTGATCGACAAGTATGATCTGT
tttgcctttt CT-rich tract
taattcatgtatta 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gtcacaaaagtagtatatacaatgcttctgaacattcttgtacaattgcataattcatgtattactagtacctagcaataaaatttgccttttgttgcagATTCTGATCATGGGGAACAGGGATGACATCGATGAGATGTCCGCTGGCAATGCAAGCGTCCTCACCACTGTCCTGAAGCTGATCGACAAGTATGATCTGT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - CTGAAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TGAAGC
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGCTG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGCTGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GCTGAT