Sequence
atgc intronic sequence ATGC exonic sequence...gtgaaaaactagcagttttctcccccttctgcccggaacaaacacacccttaagtcttcagtctttccctgaataatgaccccaaactttcttatggcagCTTAATGTTATCGGGCAAGGTCTTGGCTTTCTTGGCTCTGGCTTGTATGCCTACTGCAAGATCAAAGGGAAGTAGATACGGATGTCCAGTGGGGGTCTGA
Basic information
species | Oryza sativa |
transcript | LOC_Os02g40030.2 |
intron # | 7 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: LOC_Os02g40030.1 (Oryza sativa), 3'ss of exon 9
lower sequence: GRMZM2G020976_T01 (Zea mays), 3'ss of exon 9
gtgaaaaactagcagttttctcccccttctgcccggaacaaacacacccttaagtcttcagtctttccctgaataatgaccccaaactttcttatggcagCTTAATGTTATCGGGCAAGGTCTTGGCTTTCTTGGCTCTGGCTTGTATGCCTACTGCAAGATCAAAGGGAAGTAGATACGGATGTCCAGTGGGGGTCTGA-
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-----------gtaagtttttgtccttgtttcttatgcgccatttatctttgtatc----atctcccagtaaatactgagaccaagttttcgtatg-cagCTTAATGTTATCGGACAGGGACTAGGCTTTCTGGGATCTGGATTGTATGCCTACTGCAAGATCAGAGGGAAGTAGACG-GAAACTCCATTCAGGGGCCAGT
upper sequence: LOC_Os02g40030.1 (Oryza sativa), 3'ss of exon 9
lower sequence: GRMZM2G133226_T04 (Zea mays), 3'ss of exon 9
gtgaaaaactagcagttttctcccccttctgcccggaacaaacacacccttaagtcttcagtctttccctgaataatgaccccaaactttcttatggcagCTTAATGTTATCGGGCAAGGTCTTGGCTTTCTTGGCTCTGGCTTGTATGCCTACTGCAAGATCAAAGGGAAGTAGATACGGATGTCCAGTGGGGGTCTGA-
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-----------gtaagttt-tgggtcttgtttctatgcca--cttatctttg----tataatctcccagtgaatactgaacccaaagttttcgtgtgcagCTTAATGTTATAGGACAAGGACTAGGCTTTCTGGGCTCTGGATTGTATGCCTACTGCAAGATCAAAGGAAAGTAGACGCTGATGTCTAGTGGGA-TCAACT
upper sequence: LOC_Os02g40030.1 (Oryza sativa), 3'ss of exon 9
lower sequence: Vv04s0008g05570.t01 (Vitis vinifera), 3'ss of exon 9
gtgaaaaactagcagttttctcccccttctgcccggaacaaacacacccttaagtcttcagtctttccctgaataatgaccccaaactttcttatggcagCTTAATGTTATCGGGCAAGGTCTTGGCTTTCTTGGCTCTGGCTTGTATGCCTACTGCAAGATCAAAGGGAAGTAGATACG-GATGTCCAGTGGGGGTCTGA
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----------gtgagtgaaaaccccagtaacctcagtgc----cctcctctacatttaccattctgctcttgtgagagaacctaacatgtttccttgcagTTGAACATTACAGGACAATTTCTGGGTTTTCTTGGTTCTGGCTTGTATGCCTACTACAAGCTCATAGGGAAGTAACTGCATGAGCTGTTGGGAGGATCGG-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|58606587|gb|CK034620.1|CK034620EST: CGTCGGAATTGGCTGGGTTCTGTTTGGTGGGCTTCCTTTTGATCTG CTTAATGTTATCGGGCAAGGTCTTGGCTTTCTTGGCTCTGGCTTGTATGCC
genomic: CGTCGGAATTGGCTGGGTTCTGTTTGGTGGGCTTCCTTTTGATCTGgtgagttaaa ... cttatggcagCTTAATGTTATCGGGCAAGGTCTTGGCTTTCTTGGCTCTGGCTTGTATGCC
EST:
gi|88431822|gb|CI557479.1|CI557479EST: TCACCGTCGGAATTGGCTGGGTTCTGTTTGGTGGGCTTCCTTTTGATCTG CTTAATGTTATCGGGCAAGGTCTTGGCTTTCTTGGCTCTGGCTTGTATGCC
genomic: TCACCGTCGGAATTGGCTGGGTTCTGTTTGGTGGGCTTCCTTTTGATCTGgtgagttaaa ... cttatggcagCTTAATGTTATCGGGCAAGGTCTTGGCTTTCTTGGCTCTGGCTTGTATGCC
atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.acccttaagtcttcagtctttccctgaataatgaccccaaactttcttatggcagCTTAATGTTATCGGGCAAGGTCTTGGCTTTCTTGGCTCTGGCTTGTATGCCTACTGCAAGATCAAAGGGAAGTAGATACGGATGTCCAGTGGGGGTCTGA
ctttcttat CT-rich tract
tgaataat 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 |
10 20 30 40 50 60 70 80 90 100 110 120 130 140 150 160 170 180 190 200 210 220
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gtgaaaaactagcagttttctcccccttctgcccggaacaaacacacccttaagtcttcagtctttccctgaataatgaccccaaactttcttatggcagCTTAATGTTATCGGGCAAGGTCTTGGCTTTCTTGGCTCTGGCTTGTATGCCTACTGCAAGATCAAAGGGAAGTAGATACGGATGTCCAGTGGGGGTCTGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GCAAGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGATCA