Sequence
atgc intronic sequence ATGC exonic sequenceGTGGGTTCTAGAGCTGAGGCCAACGGCATTGCAAAAGCTGGAGCGAAAATGGTGATGGCAGTATCCTGTGCTAAGgtatgtttaattcttggttaagagtctgagagatttgattaggataagccagattctaagctcgggtcttcattcag
Basic information
species | Arabidopsis thaliana |
transcript | AT4G34030.1 |
intron # | 7 |
splice site | 5' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: AT4G34030.1 (Arabidopsis thaliana), 5'ss of exon 7
lower sequence: LOC_Os08g32850.2 (Oryza sativa), 5'ss of exon 6
GTGGGTTCTAGAGCTGAGGCCAACGGCATTGCAAAAGCTGGAGCGAAAATGGTGATGGCAGTATCCTGTGCTAAGgtat--gtttaat-------tcttggttaagagtctgagagatttgattaggataagccagattctaagctcgggtcttcattcag--------------
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GTTGGGTCAAAATCTGAAGCAAGTGGAATTGCAAAAGCGGGAGCAAAAATGGTTATGGCAGTTTCCTGTTCCAAGgtaaaaatttcatgggaccttttcccttattactctcattttttctgtagttttcactctattcagtatctagccgcctcttgtactttcatactttaat
upper sequence: AT4G34030.1 (Arabidopsis thaliana), 5'ss of exon 7
lower sequence: GRMZM2G702490_T01 (Zea mays), 5'ss of exon 6
GTGGGTTCTAGAGCTGAGGCCAACGGCATTGCAAAAGCTGGAGCGAAAATGGTGATGGCAGTATCCTGTGCTAAGgt-----atgtttaa--ttcttggttaagagtctgagaga--tttgattaggataagccag--attctaagctcgg-gtcttcattcag
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GTCGGATCAAAGTCTGAAGCTAGTGGAATTGCCAAAGCTGGAGCAAAGATGGTCATGGCAGTTTCCTGTGCTAAGgtcaaccctttctagaccctttgatgacttgtacaacaaacctttcaccaatggaacctggcaataatatatagggcatgtgaacacag
upper sequence: AT4G34030.1 (Arabidopsis thaliana), 5'ss of exon 7
lower sequence: Vv03s0063g00290.t01 (Vitis vinifera), 5'ss of exon 7
GTGGGTTCTAGAGCTGAGGCCAACGGCATTGCAAAAGCTGGAGCGAAAATGGTGATGGCAGTATCCTGTGCTAAGgtatgttta----attcttggttaagagtctgagagatttgattaggataagccagattct---aagctcgggtcttcattcag----------------
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GTTGGTTCAAGATCTGAGGCAAATGGGATAGCAAAATCTGGAGCGAAGATGGTGATGGCAGTTTCTTGTGCAAAGgttagtttcttctacttttcttcacttttttgttgggatgaaaatgttttatataatttttgtaatattcatgactgcatgtgaatcctgccttaagctgMapped 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|301503246|gb|HO208786.1|HO208786EST: GCATTGCAAAAGCTGGAGCGAAAATGGTGATGGCAGTATCCTGTGCTAAG GTACCAAAGATTACAATCATAACGGGTGCAAGCTTTGGTGCTGGAAACTAT
genomic: GCATTGCAAAAGCTGGAGCGAAAATGGTGATGGCAGTATCCTGTGCTAAGgtatgtttaa ... cttcattcagGTACCAAAGATTACAATCATAACGGGTGCAAGCTTTGGTGCTGGAAACTAT
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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
GTGGGTTCTAGAGCTGAGGCCAACGGCATTGCAAAAGCTGGAGCGAAAATGGTGATGGCAGTATCCTGTGCTAAGgtatgtttaattcttggttaagagtctgagagatttgattaggataagccagattctaagctcgggtcttcattcag
- - - - - - - - - - - - - - - - - AAGCTG
- - - - - - - - - - - - - - - - - - GCTGGA