Sequence
atgc intronic sequence ATGC exonic sequenceCAACATAATTGAGCCTTTTCACCGCTTCGTTGGAAGTGACATGCTGACAGACTTGAGATATCCACTGAAGGGCAATACAGTTCCATTTTGGGCTGTTCCAgtatgttcttgctttgtgagatttaattttcttataagatcatctattgacttgtctgtggtgcatgacatgtctctgaggaagtttggtttttcttgatttccag
Basic information
species | Oryza sativa |
transcript | LOC_Os08g27030.2 |
intron # | 2 |
splice site | 5' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: LOC_Os08g27030.2 (Oryza sativa), 5'ss of exon 2
lower sequence: GRMZM2G447433_T09 (Zea mays), 5'ss of exon 4
CAACATAATTGAGCCTTTTCACCGCTTCGTTGGAAGTGACATGCTGACAGACTTGAGATATCCACTGAAGGGCAATACAGTTCCATTTTGGGCTGTTCCAgtatgttcttgctttgtgagatttaattttcttataagatcatctattgacttgtctgtggtgcatgacatgtctctgaggaagtttggtttttcttgatttccag
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---------------CTTTCACCGCTTTGTTGGACGCGACATGATGACCGACTTGAGTTATCCCCTCAAGGGCAACACAATCCCATTTTGGGCTGTTCCAGTATGTTCT-GCTCTGgtacttcacattttgatttcaaat-attgatttaactgtgtgctacacacaatatgtccttaggcatgttattttttccttcattacag-
upper sequence: LOC_Os08g27030.2 (Oryza sativa), 5'ss of exon 2
lower sequence: GRMZM2G447433_T08 (Zea mays), 5'ss of exon 4
CAACATAATTGAGCCTTTTCACCGCTTCGTTGGAAGTGACATGCTGACAGACTTGAGATATCCACTGAAGGGCAATACAGTTCCATTTTGGGCTGTTCCAgtatgttcttgctttgtgagatttaattttcttataagatcatctattgacttgtctgtggtgcatgacatgtctctgaggaagtttggtttttcttgatttccag
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AAACATAATCGAGCCCTTTCACCGCTTTGTTGGACGCGACATGATGACCGACTTGAGTTATCCCCTCAAGGGCAACACAATCCCATTTTGGGCTGTTCCAgtatgttct-gctctggtacttcacattttgatttcaaat-attgatttaactgtgtgctacacacaatatgtccttaggcatgttattttttccttcattacag-
upper sequence: LOC_Os08g27030.2 (Oryza sativa), 5'ss of exon 2
lower sequence: GRMZM2G447433_T03 (Zea mays), 5'ss of exon 4
CAACATAATTGAGCCTTTTCACCGCTTCGTTGGAAGTGACATGCTGACAGACTTGA-GATATCCACTGAAGGGCAATACAGTTCCATT-TTGGGCTGTTCCAgtatgttcttgctttgtgagatttaattttct-tataagatcatctattgacttgtctgtggtgcatgacatgtctctgaggaagtttggtttttcttgatttccag
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--------GGGAGGATGCCTGATATCCAGCTGGGA-TGCCACACTATAAGGTCCCATGGTACCAAAGTGGCAACATTACACATgtatgactggattatacttttatgt-cttgctgtacttgatggactgttaaacataatcgagccctttcaccgctttgttggacgcgacatga---tgaccgacttgagttatcc----cctcaag
upper sequence: LOC_Os08g27030.2 (Oryza sativa), 5'ss of exon 2
lower sequence: GRMZM2G447433_T03 (Zea mays), 5'ss of exon 5
CAACATAATTGAGCCTTTTCACCGCTTCGTTGGAAGTGACATGCTGACAGACTTGAGATATCCACTGAAGGGCAATACAGTTCCATTTTGGGCTGTTCCAgtatgttcttgctttgtgagatttaattttcttataagatcatctattgacttgtctgtggtgcatgacatgtctctgaggaagtttggtttttcttgatttccag
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----------------------------------------------------------------------GGCAACACAATCCCATTTTGGGCTGTTCCAgtatgttct-gctctggtacttcacattttgatttcaaat-attgatttaactgtgtgctacacacaatatgtccttaggcatgttattttttccttcattacag-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|33684221|gb|CF312460.1|CF312460EST: ACTTGAGATATCCACTGAAGGGCAATACAGTTCCATTTTGGGCTGTTCCA CTGATTGCAATTGTGCTGCCCTGGGCCATCTTTGGTGGAATTTACTTCAAA
genomic: ACTTGAGATATCCACTGAAGGGCAATACAGTTCCATTTTGGGCTGTTCCAgtatgttctt ... tgatttccagCTGATTGCAATTGTGCTGCCCTGGGCCATCTTTGGTGGAATTTACTTCAAA
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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
CAACATAATTGAGCCTTTTCACCGCTTCGTTGGAAGTGACATGCTGACAGACTTGAGATATCCACTGAAGGGCAATACAGTTCCATTTTGGGCTGTTCCAgtatgttcttgctttgtgagatttaattttcttataagatcatctattgacttgtctgtggtgcatgacatgtctctgaggaagtttggtttttcttgatttccag
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - CTGAAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GCTGTT