Sequence
atgc intronic sequence ATGC exonic sequenceAGTGCTGTTGTGGATCAAATCTGTAATAGGTGAGACAGGTAGTGATGTTACAACTGATCAACTCAAAGAGTATGTGTGGAAGACACTAAAAAGTGGAAAGgtagcttatctcactgttatatctatttgatgaggaagtgcatatatgatcgtgttttaactgcaaatttattttctcgggaagtttgaaatgaaaactc...
Basic information
species | Oryza sativa |
transcript | LOC_Os11g33240.2 |
intron # | 15 |
splice site | 5' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: LOC_Os11g33240.2 (Oryza sativa), 5'ss of exon 15
lower sequence: GRMZM2G063909_T03 (Zea mays), 5'ss of exon 14
AGTGCTGTTGTGGATCAAATCTGTAATAGGTGAGACAGGTAGTGATGTTACAACTGATCAACTCAAAGAGTATGTGTGGAAGACACTAAAAAGTGGAAAGgtagcttatctcactgttatatctatttgatgaggaagtgcatatatgatcgtgttttaactgcaaa---tttattttctcgg-gaagtttgaaa--tgaaaactc------------------------------------------------------------------
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AGCGCTTCTATGGCTCAAGTCTATAATTCAGGAAACAGGGAGCGACGTTACGACAGACCAACTCAAAGACTATGTCTGGAAGACACTGAAGAGTGGAAAGgtatatcatttcactgaggtctagtgttcatgatcatgctcgaacacggccttgtttcccgtaggaaagctataccagttcactgaggtttgaaagatatgagctgtctttgtttatgaatttggtgtctcgctgatgatctgtgttcgctgttgcttgcattcaatcacag
upper sequence: LOC_Os11g33240.2 (Oryza sativa), 5'ss of exon 15
lower sequence: GRMZM2G064023_T01 (Zea mays), 5'ss of exon 16
AGTGCTGTTGTGGATCAAATCTGTAATAGGTGAGACAGGTAGTGATGTTACAACTGATCAACTCAAAGAGTATGTGTGGAAGACACTAAAAAGTGGAAAGgtagcttatctcactgttatatctatttgatgaggaagtgcatatatgatcgtgtttta-actgcaaatttatttt--ctcgggaagtttgaaatgaaaactc------------------------------------------------------------------------------
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AGTGCTTCTATGGATCAAATCTGTAATTCAGGAAACTGGGAGTGATGTTACAACGGATCAACTCAAAGAGTATGTCTGGAAGACACTAAAGAGTGGAAAGgtatatcgtttcactgaggtctagtgtttatgttcatgctcgaacacggttttgtttcccataggaaagctatatcagttcactgagatttgaatgatgtgcagtagtctgatagatttgtctttgtttatgaaagtgatatctatctgatgatctgtgttcgctgttgcttgcattatag
upper sequence: LOC_Os11g33240.2 (Oryza sativa), 5'ss of exon 15
lower sequence: GRMZM2G063851_T05 (Zea mays), 5'ss of exon 1
AGTGCTGTTGTGGATCAAATCTGTAATAGGTGAGACAGGTAGTGATGTTACAACTGATCAACTCAAAGAGTATGTGTGGAAGACACTAAAAAGTGGAAAGgtagcttatctcactgttatatctatttgatgaggaagtgcatatatgatcgtgttttaactgcaaatt-tattttctcgggaagtttgaaatgaaaactc
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AGTGCTTTTATGGATCAAATCTGTAATTGAGGAAACTGGGAGTGGTGTTACCACAGATCAACTCAAAGACTATGTCTGGAAGACACTAAAGAGTGGAAAGgtatgtcagttcgcagaggtttagtgtttgtgatcatgctcgaacaaggttgtttcccacaagaaagctatatcgattcactgaattttgaatgatgtgc-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|3758954|gb|C96653.1|C96653EST: CAACTGATCAACTCAAAGAGTATGTGTGGAAGACACTAAAAAGTGGAAAG GTTGTTCCTGGCT-CGGTCATGGAGTTCTACGTAAGACCGAT
genomic: CAACTGATCAACTCAAAGAGTATGTGTGGAAGACACTAAAAAGTGGAAAGgtagcttatc ... tcatttgtagGTTGTTCCTGGCTTCGGTCATGGAGTTCTACGTAAGACCGAT
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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
AGTGCTGTTGTGGATCAAATCTGTAATAGGTGAGACAGGTAGTGATGTTACAACTGATCAACTCAAAGAGTATGTGTGGAAGACACTAAAAAGTGGAAAGgtagcttatctcactgttatatctatttgatgaggaagtgcatatatgatcgtgttttaactgcaaatttattttctcgggaagtttgaaatgaaaactc
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TGGAAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GGAAGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGTGGA