Sequence
atgc intronic sequence ATGC exonic sequencegtatgtagaactttttccttgagtggtaggatttacatctattctttatttttttggtaataatgtttgcaaacaaaacagGTGGAGACTCCAAGACTTTGATGTTTGTTCAGATCAGCCCAAATGAGAACGATGTGGGTGAAACTCTTTGCTCGCTAAACTTTGCGAGCAGAGTGCGGGG
Basic information
species | Oryza sativa |
transcript | LOC_Os12g42160.1 |
intron # | 12 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: LOC_Os12g42160.1 (Oryza sativa), 3'ss of exon 12
lower sequence: GRMZM2G400223_T01 (Zea mays), 3'ss of exon 11
gtatgtagaactttt---tccttgagtggtaggatttacatctattctttatttttttggtaataatgtttgcaaacaaaacagGTGGAGACTCCAAGACTTTGATGTTTGTTCAGATCAGCCCAAATGAGAACGATGTGGGTGAAACTCTTTGCTCGCTAAACTTTGCGAGCAGAGTGCGGGG
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gtatgtagtttttttgtttcatagaattgtgtaatcttacactttagtttagttttatgatt-caatgttt--aaacaatacagGTGGAGATTCCAAAACTTTGATGTTTGTTCAAATCAGTCCTAATGAGAACGACGTGGGTGAAACTCTTTGTTCATTGAACTTCGCGAGCAGAGTACGAGG
upper sequence: LOC_Os12g42160.1 (Oryza sativa), 3'ss of exon 12
lower sequence: Vv19s0027g00080.t01 (Vitis vinifera), 3'ss of exon 13
--------gtatgtagaactttttccttgagtggtaggatttacatctattctttatttttt--tggtaataa-tgtttgcaaacaaaac----------agGTGGAGACTCCAAGACTTTGATGTTTGTTCAGATCAGCCCAAATGAGAACGATGTGGGTGAAACTCTTTGCTCGCTAAACTTTGCGAGCAGAGTGCGGGG
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ttttgtcggtttcttggaaattaactttaatt--cagcttttatctttacaatttatatggagacaagaacaactgatgatgcgcgagcttttctttgttagGAGGAGACTCCAAGACGCTCATGTTTGTACAGATCAGTCCTAATGAGAATGACTTGAGTGAGACTCTTTGCTCCCTCAATTTTGCAAGTAGAGTGAAAGGMapped 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|58683191|gb|CK071878.1|CK071878EST: GAACTCAAAGCTAACGCACTTGCTGCAGGACTCACTAA GTGGAGACTCCAAGACTTTGATGTTTGTTCAGATCAGTCCAAATGAGAACG
genomic: GAACTCAAAGCTAACGCACTTGCTGCAGGACTCGCTAAgtatgtagaa ... aacaaaacagGTGGAGACTCCAAGACTTTGATGTTTGTTCAGATCAGCCCAAATGAGAACG
atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.taggatttacatctattctttatttttttggtaataatgtttgcaaacaaaacagGTGGAGACTCCAAGACTTTGATGTTTGTTCAGATCAGCCCAAATGAGAACGATGTGGGTGAAACTCTTTGCTCGCTAAACTTTGCGAGCAGAGTGCGGGG
tattctttattttttt TA-rich tract
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 |
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gtatgtagaactttttccttgagtggtaggatttacatctattctttatttttttggtaataatgtttgcaaacaaaacagGTGGAGACTCCAAGACTTTGATGTTTGTTCAGATCAGCCCAAATGAGAACGATGTGGGTGAAACTCTTTGCTCGCTAAACTTTGCGAGCAGAGTGCGGGG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GAGCAG