Sequence
atgc intronic sequence ATGC exonic sequenceGAAACAGCTTTTGTTGAACCAACTACTGCTGATCAACATGTGCCTGGTTATGGGAAGGGACTTTCATCCAGCTCCCTCTCTGAAGTATTCAGTGGCAAATgtgagttccctttgccttctttttttcccctacaagccatgttgatagtagaattttatcatcttagttgcactacaaccaaaagtactgtttttgaaagaaaccacaatattgttcattgaagattaatcttttctaagagttcatgatgttctgcag
Basic information
species | Oryza sativa |
transcript | LOC_Os05g01240.2 |
intron # | 4 |
splice site | 5' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: LOC_Os05g01240.2 (Oryza sativa), 5'ss of exon 4
lower sequence: GRMZM2G156956_T02 (Zea mays), 5'ss of exon 5
GAAACAGCTTTTGTTGAACCAACTACTGCTGATCAACATGTGCCTGGTTATGGGAAGGGACTTTCATCCAGCTCCCTCTCTGAAGTATTCAGTGGCAAATgtgagttccctttgccttctttttttcccctacaagccatgttgatagtagaattttatcatcttagttgcactacaaccaaaa-gtactgtttttgaaagaaaccacaatattgttcattgaagattaatcttttctaagagttcatgatgttctgcag
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GGGACGGCTTTTGTTGAACCACCCAGTGCTGATCAACATGTGCAAGACTATGGAGACTGCTTTTCATCCAGCTCCTTCACTGAAGTCTTCGGTAGAAAATgtgagttcctcttgcatttttttcaagaaactaatacttactagggattggagagctggtaccaccatt--atttcgtccaaaatgtgctgtt---------aaccagtttatt-taccttaa----caatgttttccccttgcctcaaccccgcagcag
upper sequence: LOC_Os05g01240.2 (Oryza sativa), 5'ss of exon 4
lower sequence: GRMZM2G156956_T01 (Zea mays), 5'ss of exon 3
GAAACAGCTTTTGTTGAACCAACTACTGCTGATCAACATGTGCCTGGTTATGGGAAGGGACTTTCATCCAGCTCCCTCTCTGAAGTATTCAGTGGCAAATgtgagttccctttgccttctttttttcccctacaagccatgttgatagtagaattttatcatcttagttgcactacaaccaaaa-gtactgtttttgaaagaaaccacaatattgttcattgaagattaatcttttctaagagttcatgatgttctgcag
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GGGACGGCTTTTGTTGAACCACCCAGTGCTGATCAACATGTGCAAGACTATGGAGACTGCTTTTCATCCAGCTCCTTCACTGAAGTCTTCGGTAGAAAATgtgagttcctcttgcatttttttcaagaaactaatacttactagggattggagagctggtaccaccatt--atttcgtccaaaatgtgctgtt---------aaccagtttatt-taccttaacaatg---ttttccccttgcctca----accccgcagMapped 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|58654787|gb|CK043467.1|CK043467EST: TGGGAAGGGACTTTCATCCAGCTCCCTCTCTGAAGTATTCAGTGGCAAAT CGAGAGAAATAGTAAGTGGTGTTCTTTGTCAATCTACTGGGACACATACCT
genomic: TGGGAAGGGACTTTCATCCAGCTCCCTCTCTGAAGTATTCAGTGGCAAATgtgagttccc ... tgttctgcagCGAGAGAAATAGTAAGTGGTGTTCTTTGTCAATCTACTGGGACACATACCT
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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
GAAACAGCTTTTGTTGAACCAACTACTGCTGATCAACATGTGCCTGGTTATGGGAAGGGACTTTCATCCAGCTCCCTCTCTGAAGTATTCAGTGGCAAATgtgagttccctttgccttctttttttcccctacaagccatgttgatagtagaattttatcatcttagttgcactacaaccaaaagtactgtttttgaaagaaaccacaatattgttcattgaagattaatcttttctaagagttcatgatgttctgcag
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - CAGCTC
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - CTGAAG