Sequence
atgc intronic sequence ATGC exonic sequenceCCCAAGGGTTACACCTGAAGTCACCAGAGATGTTTGCTTGTTAGCTAGAATGATGGCTGCTACTATGTACTTTAACCAAATCGAAGATCTTATGTTTGAGgtttgatctcgagttctttttttgagtttagtctccttactttcttttatttatgtatcacctcatttcatgattactgcttctttcatag
Basic information
species | Arabidopsis thaliana |
transcript | AT1G53310.3 |
intron # | 5 |
splice site | 5' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: AT1G53310.3 (Arabidopsis thaliana), 5'ss of exon 5
lower sequence: LOC_Os08g27840.1 (Oryza sativa), 5'ss of exon 5
CCCAAGGGTTACACCTGAAGTCACCAGAGATGTTTGCTTGTTAGCTAGAATGATGGCTGCTACTATGTACTTTAACCAAATCGAAGATCTTATGTTTGAGgtttgatctcgagttctttttttgagtttagtctccttactttcttttatttatgtatcacctcatttcatgattactgcttctttcatag
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TCCAAGAGTGACACCAGAAGTCACAAGGGATGTATGCTTGCTTGCTAGAATGATGGCTTCAAATTTATACTGCTCGCAAATTGAGGATCTCATGTTTGAGgtaagaatt--acttcatcccttatcttccacacatataaatcaattttattaaat-tctccaaattctggcag-----------------
upper sequence: AT1G53310.3 (Arabidopsis thaliana), 5'ss of exon 5
lower sequence: GRMZM2G110714_T01 (Zea mays), 5'ss of exon 5
CCCAAGGGTTACACCTGAAGTCACCAGAGATGTTTGCTTGTTAGCTAGAATGATGGCTGCTACTATGTACTTTAACCAAATCGAAGATCTTATGTTTGAGgtttgatctcgagttctttttttgagtttagtctccttactttcttttatttatgtatcacctcatttcatgattactgcttctttcatag
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TCCAAGAGTCACGCCAGAGGTTACAAGGGATGTATGCTTGTTGGCTAGAATGATGGCTGCTAATTTGTATAATGCCCAGATAGAAGACCTGATGTTTGAGgtaaaagtaaggacacatttttttaatattgtagtgata-ttagtctcacaagaat-tctttttatcgcatgcag----------------
upper sequence: AT1G53310.3 (Arabidopsis thaliana), 5'ss of exon 5
lower sequence: Vv12s0028g02180.t01 (Vitis vinifera), 5'ss of exon 5
CCCAAGGGTTACACCTGAAGTCACCAGAGATGTTTGCTTGTTAGCTAGAATGATGGCTGCTACTATGTACTTTAACCAAATCGAAGATCTTATGTTTGAGgtttg--atctcgagttctttttttga-gtttagtc-tccttactttct---tttatttatg-tatcacctcatttcatgattactgcttctttcatag---------------------
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CCCCAGGGTAACACCTGAAGTTACAAGGGATGTATGCTTATTGGCCAGAATGATGGCTGCTAACTTGTATTATTCTCAGATAGAGGACCTTATGTTTGAGgtgtgtaatgttttatccactctctgatgtgttttcatctttgtcttctgagcattttcatggtatcctcttctgctgccccaattgttttttttatttatttttgcattttcttggcagMapped 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|125212573|gb|EL227527.1|EL227527EST: TGTACTTTAACCAAATCGAAGATCTTATGTTTGAG ATGTCTATGTGGCGTTGCAATGACGAGCTGCGTGCGCGAGCTGATGAAGTT
genomic: TGTACTTTAACCAAATCGAAGATCTTATGTTTGAGgtttgatctc ... tctttcatagATGTCTATGTGGCGTTGCAATGACGAGCTGCGTGCGCGAGCTGATGAAGTT
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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
CCCAAGGGTTACACCTGAAGTCACCAGAGATGTTTGCTTGTTAGCTAGAATGATGGCTGCTACTATGTACTTTAACCAAATCGAAGATCTTATGTTTGAGgtttgatctcgagttctttttttgagtttagtctccttactttcttttatttatgtatcacctcatttcatgattactgcttctttcatag
- - - - - - - - - - - - - - - - - - - - - - - - - - - GCTGCT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - CGAAGA