Sequence
atgc intronic sequence ATGC exonic sequenceGTTGAGGGCCAAAATGCTTATCAGTTCTGTATACAGCCACCTGATGCTCCTGCATTTGTTGGAAATAGTgtatgtcaattctattctgaaaaacaaattccttcatcacatcttctgtgtgatctcttgtatcgattttactccaaatgatttattagaatatctctta...
Basic information
species | Oryza sativa |
transcript | LOC_Os09g19734.1 |
intron # | 12 |
splice site | 5' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: LOC_Os09g19734.2 (Oryza sativa), 5'ss of exon 12
lower sequence: GRMZM2G022837_T02 (Zea mays), 5'ss of exon 7
GTTGAGGGCCAAAATGCTTATCAGTTCTGTATACAGCCACCTGATGCTCCTGCATTTGTTGGAAATAGTgtatgtcaattctattctgaaaaacaaattccttcatc-----acatcttctgtgtgatctcttgtatcgattttactccaaatgatttattagaatatctctta----------------------------------------------------------------------
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GCTGAGGGCCAAAATGCTTATCAATTCTGCATACAGCCACCGGGTGCTCCTGCGTTTGTCGGAAATAGCgtatgtttactgtgttcttgtttgtttttatttttattcttcaaaatcagcaccgcacacttttgttttttccccccttctatttagtgagaaaaacaaatggatgtaacgacaatgctatatagcttttttcttcttctaactaatgttcatttcatgcaaacattctgaatag
upper sequence: LOC_Os09g19734.2 (Oryza sativa), 5'ss of exon 12
lower sequence: Vv17s0000g05750.t01 (Vitis vinifera), 5'ss of exon 8
GTTGAGGGCCAAAATGCTTATCAGTTCTGTATACAGCCACCTGATGCTCCTGCATTTGTTGGAAATAGTgtatgtcaattctattctg------aaaaacaaa-ttccttcatcacatcttctgtgtgatctcttgtatcgattttactccaaatgatttattagaatatctctta
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GTTGAGGGACAAAATGCTTACCAGTTCTTTCTTCAGCCACCTGATGCACCAGCATTTATTGGGAACACTgtaagctatctttatcttattatgtaacaataaagcttatttactcctttctctgcatggttgtatgcttttatatgattatttgctgtttattccagaa-------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|58689202|gb|CK077889.1|CK077889EST: ATCAGTTCTGCATACAGCCACCTGATGCTCCTGCATTTGTTGGAAATAGT CCAGAGCAATTATTTCATCGGAAATACTTAAACATTTCCAGCGAGGCTTTA
genomic: ATCAGTTCTGTATACAGCCACCTGATGCTCCTGCATTTGTTGGAAATAGTgtatgtcaat ... ttctgaatagCCAGAGCAATTATTTCATCGGAAATACTTAAACATTTCCAGCGAGGCTTTA
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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
GTTGAGGGCCAAAATGCTTATCAGTTCTGTATACAGCCACCTGATGCTCCTGCATTTGTTGGAAATAGTgtatgtcaattctattctgaaaaacaaattccttcatcacatcttctgtgtgatctcttgtatcgattttactccaaatgatttattagaatatctctta
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -aaacaaa