Sequence
atgc intronic sequence ATGC exonic sequencegcaagagctttgattgattggccattcatctccatgatactaggttagtcatagactgttgcatgtagccttaggaaccacataagcatatttttctaaatctgatgttagactttgtacatttgacagGTCTGGTTTCGTGTAAATGAACTACTACCTCTCGAGTTACAGAAAAATCTACCCGATGGAGCTTCGTCAGGCATTTCCATGAGTTTGCAAGATGAAG
Basic information
species | Oryza sativa |
transcript | LOC_Os02g37880.2 |
intron # | 5 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: LOC_Os02g37880.3 (Oryza sativa), 3'ss of exon 5
lower sequence: GRMZM2G026043_T01 (Zea mays), 3'ss of exon 5
gcaagagctttgattgattggccattcatctccatgatactaggttagtcatagactgttgcatgtagccttaggaaccacataagcatatttttctaaatctgatgttagactttgtacatttgacagGTCTGGTTTCGTGTAAATGAACTACTACCTCTCGAGTTACAGAAAAATCTACCCGATGGAGCTTCGTCAGGCATTTCCATGAGTTTGCAAGATGAAG
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gcaagag-tttgattgattggccattcatctccatggtactaggttagtaatagactgttgcatgtagccctaggaatcagataa--attgttttctttggcttatgctatattctgtatatttgacagGTCTGGTTTCGTGTTAATGAGCTACTGCCGCTTGAGTTACAAAAAAGTTTACCTGACGGACCTTCGCCAGCCGTTTCCTTGAGTTTGCAAGATGAAG
upper sequence: LOC_Os02g37880.3 (Oryza sativa), 3'ss of exon 5
lower sequence: GRMZM2G051079_T01 (Zea mays), 3'ss of exon 5
gcaagagctttgattgattggccattcatctccatgatact--aggttagtcatagactgttgcatgtagccttaggaaccacataagcatatttttctaaatctgatgttagactttgtacatttgacagGTCTGGTTTCGTGTAAATGAACTACTACCTCTCGAGTTACAGAAAAATCTACCCGATGGAGCTTCGTCAGGCATTTCCATGAGTTTGCAAGATGAAG
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gcaagagctttgattgattgatcattcatcttcacgatactctaggttagtcatatactgttgcatgtagccctaggaatcaaataa--attgttttctttggcttatgctatatgctgtatatttgacagGTCTGGTTTCGTGTTAATGAGCTACTGTCGCTTGAGTTACAGAAAAGGTTACCTGATGGACCTTCACCAGCCGTTTCCTTGAGCTCGCAAGATGAAG
upper sequence: LOC_Os02g37880.3 (Oryza sativa), 3'ss of exon 5
lower sequence: Vv13s0156g00640.t01 (Vitis vinifera), 3'ss of exon 6
gcaagagctttgattgattggccattcatctccatgatactaggttagtcatagactgttg-----catgt-agccttaggaaccacataagcatatttttctaaat-ctgatgttagactttgtacatttgacagGTCTGGTTTCGTGTAAATGAACTACTACCTCTCGAGTTACAGAAAAATCTACCCGATGGAGCTTC-GTCAGGCATTTCCATGAGTTTGCAAG--ATGAAG
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gcaagcgctttgcttgattggccattcatctccatgactttaggttagttttagatggtttgagtccatgtcaacattaggggccaggaa---ttttctgtctgcatgctaatgctgattcttttaatcatggcagGTGTGGTTTCGTGTTAATGAGCAATTGCCTGCTGCATTACAGAAGTCATTACCTGACAGGCCACCTGGGATGAATCAATCTGCGGCTGATGGGCATGAAGMapped 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|88397996|gb|CI585499.1|CI585499EST: TCAAAGATATGCTGGAAGCCTCTCCAAATGACAGACCTGATGTCACGCAG GTCTGGTTTCGTGTAAATGAACTACTACCTCTCGAGTTACAGAAAAATCTA
genomic: TCAAAGATATGCTGGAAGCCTCTCCAAATGACAGACCTGATGTCACGCAGgcaagagctt ... catttgacagGTCTGGTTTCGTGTAAATGAACTACTACCTCTCGAGTTACAGAAAAATCTA
atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.gaaccacataagcatatttttctaaatctgatgttagactttgtacatttgacagGTCTGGTTTCGTGTAAATGAACTACTACCTCTCGAGTTACAGAAAAATCTACCCGATGGAGCTTCGTCAGGCATTTCCATGAGTTTGCAAGATGAAG
atatttttctaaatct 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gcaagagctttgattgattggccattcatctccatgatactaggttagtcatagactgttgcatgtagccttaggaaccacataagcatatttttctaaatctgatgttagactttgtacatttgacagGTCTGGTTTCGTGTAAATGAACTACTACCTCTCGAGTTACAGAAAAATCTACCCGATGGAGCTTCGTCAGGCATTTCCATGAGTTTGCAAGATGAAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GATGGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GGAGCT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GAGCTT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GCAAGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGATG