Sequence
atgc intronic sequence ATGC exonic sequenceGTATCTTGTTCTGGCGAATATGCTGATGGAGTCAGAAGTGAATCCGTTTGATGGCCAAGAGGCAAAGCCgtaagtcatttccgtatatattttttgttgaacactcgttttggttcgttgcttcatagttggctctctgcag
Basic information
species | Arabidopsis thaliana |
transcript | AT2G26990.1 |
intron # | 8 |
splice site | 5' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: AT2G26990.1 (Arabidopsis thaliana), 5'ss of exon 8
lower sequence: LOC_Os01g17180.1 (Oryza sativa), 5'ss of exon 8
GTATCTTGTTCTGGCGAATATGCTGATGGAGTCAGAAGTGAATCCGTTTGATGGCCAAGAGGCAAAGCCgtaagtcattt--------ccgtatatattttttgttgaacactcgttttggttcgttgcttcatagttggctctctgcag
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ATATCTTGTTCTTGCAAATATGTTGATGGAATCTGAAGTGAATCCCTTTGATGGGCAAGAGGCTAAGCCgtaagacatttgatgattccctcataaatcttgtatcttaatttcatgccaccctgtaactccttgat--gctttcag---
upper sequence: AT2G26990.1 (Arabidopsis thaliana), 5'ss of exon 8
lower sequence: GRMZM2G132804_T01 (Zea mays), 5'ss of exon 8
GTATCTTGTTCTGGCGAATATGCTGATGGAGTCAGAAGTGAATCCGTTTGATGGCCAAGAGGCAAAGCCgtaagtcattt-----ccgtatatattttttgttgaacactcgttttggttcgttgcttcatag-ttggctctctgcag
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ATATCTTGTCCTTGCCAATATGTTGATGGAGTCTGAAGTGAATCCTTTTGATGGACAAGAGGCCAAGCCgtaagacaactgatgatcccgcataaatcttgtag----cttgatttacctcccaccctgaaaactcaaatgcttgcag
upper sequence: AT2G26990.1 (Arabidopsis thaliana), 5'ss of exon 8
lower sequence: GRMZM2G079196_T01 (Zea mays), 5'ss of exon 8
GTATCTTGTTCTGGCGAATATGCTGATGGAGTCAGAAGTGAATCCGTTTGATGGCCAAGAGGCAAAGCCgtaagtcatttccgtatatattttt---tgttgaacactcgttttggttcgttgcttcatagttggctctctgcag
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ATATCTTGTCCTTGCCAATATGTTGATGGAATCTGAAGTGAATCCTTTTGATGGACAAGAGGCCAAGCCgtaagacaatttatgatccccgcataaatatggtagcttgatttccctcccaccctgaaaattctaatgtttgcag
upper sequence: AT2G26990.1 (Arabidopsis thaliana), 5'ss of exon 8
lower sequence: Vv08s0040g00430.t01 (Vitis vinifera), 5'ss of exon 8
GTATCTTGTTCTGGCGAATATGCTGATGGAGTCAGAAGTGAATCCGTTTGATGGCCAAGAGGCAAAGCCgtaagtcatttccgtatatattttttgttgaacact-cgttttggttcgttgcttcatagttg----gctctctgcag----------------------------------
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ATACTTGGTTCTGGCTAACATGCTCATGGAGTCAGAAGTTAATCCTTTTGATGGACAGGAGGCAAAGCCgtaagttgctcttatg-atttgtatatttgatctgtgtgtttttgttattggtctgttggtggcaatgttctttgttattccttgtggccacttacaattgctcttttccagMapped 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|86049784|gb|DR345539.1|DR345539EST: ATGCTGATGGAGTCAGAAGTGAATCCGTTTGATGGCCAAGAGGCAAAGCK N-ACAAAAACGACCCTGAGATTTTGGCAATGACAAATTTGATCGCAGCATA
genomic: ATGCTGATGGAGTCAGAAGTGAATCCGTTTGATGGCCAAGAGGCAAAGCCgtaagtcatt ... ctctctgcagGTACAAAAACGACCCTGAGATTTTGGCAATGACAAATTTGATCGCAGCATA
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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
GTATCTTGTTCTGGCGAATATGCTGATGGAGTCAGAAGTGAATCCGTTTGATGGCCAAGAGGCAAAGCCgtaagtcatttccgtatatattttttgttgaacactcgttttggttcgttgcttcatagttggctctctgcag
- - - - - - - - - ATGCTG
- - - - - - - - - - GCTGAT
- - - - - - - - - - - - GATGGA
- - - - - - - - - - - - - - - - AGAAGT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGAGG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GCAAAG