Sequence
atgc intronic sequence ATGC exonic sequenceAGTACACACATTGCACTTGCCTTTGAGGTTCCAGGTGGCTGGCGTCAAGAGAAAACTGCAATGATTGTGACTGTGCTTCAGgtatgcctaacaatatgttgaagtgatccaattatttatggctaacctatatggtctgttgattctgtactatataggaattgatggattatttcatattttattgcgttgcaagctctattattcaaatctattgtactgaaacataagattaatataaattgtag
Basic information
species | Oryza sativa |
transcript | LOC_Os05g44916.2 |
intron # | 5 |
splice site | 5' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: LOC_Os05g44916.1 (Oryza sativa), 5'ss of exon 6
lower sequence: GRMZM2G005036_T01 (Zea mays), 5'ss of exon 6
AGTACACACATTGCACTTGCCTTTGAGGTTCCAGGTGGCTGGCGTCAAGAGAAAACTGCAATGATTGTGACTGTGCTTCAGgtatgcctaacaatatgttgaagtgatccaattatttatggctaacctatatggtctgttgattctgtactatataggaattgatggattatttcatattttattgcgttgcaagctctattattcaaatctattgtactgaaacataagattaatataaattgtag
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AACACACACATCGCACTTGCTTTTGAGGTGCCAGGTGGTTGGAATCAAGAGAAAACTGCAATGGTTGTGACAGTGCTTCAGgtatgccttacaac-tgtttaaatgatctaactatttatggatacttgaggccatttgtt---------ctatattagaattgctga--tgctttcttttttggaacttatc-------------------------------------------------------
upper sequence: LOC_Os05g44916.1 (Oryza sativa), 5'ss of exon 6
lower sequence: GRMZM2G068336_T01 (Zea mays), 5'ss of exon 6
AGTACACACATTGCACTTGCCTTTGAGGTTCCAGGTGGCTGGCGTCAAGAGAAAACTGCAATGATTGTGACTGTGCTTCAGgtatgcctaacaatatgttgaagtgatccaattatttatggctaacctatatggtctgttg-attctgtactatataggaattgatggattatttcatattttattgcgttgcaagctctattattcaaatctattgtactgaaacataagattaatataaattgtag-
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AACACACACATCGCACTTGCTTTTGAGGTGCCAGGTGGTTGGAATCAAGAGAAAACCGCAATGGTTGTGA----GCTTCAGgtatgccttacaac-tgttgaaatgatctaactatttatggatacttgaggccatttgttctatattaaaattgttgatgctttcttttttggaacttatttttacatgttatctcatgtgctcgccgggttcgattcctggctggaatgaactcatgtgcctcaccagMapped 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|286522|gb|D15329.1|D15329EST: CAGGTGGCTGGCGTCAAGAGAAAACTGCAATGATTGTGACTGTGCTTCAG GTGCTCATGGGTGGAGGAGGGTCCTTCTCGACCGGTGGCCCTGGGAAAGGA
genomic: CAGGTGGCTGGCGTCAAGAGAAAACTGCAATGATTGTGACTGTGCTTCAGgtatgcctaa ... taaattgtagGTGCTCATGGGTGGAGGAGGGTCCTTCTCGACCGGTGGCCCTGGGAAAGGA
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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
AGTACACACATTGCACTTGCCTTTGAGGTTCCAGGTGGCTGGCGTCAAGAGAAAACTGCAATGATTGTGACTGTGCTTCAGgtatgcctaacaatatgttgaagtgatccaattatttatggctaacctatatggtctgttgattctgtactatataggaattgatggattatttcatattttattgcgttgcaagctctattattcaaatctattgtactgaaacataagattaatataaattgtag
- - - - - - - - - - - - - - - - - - - - - - - AAGAGA