Sequence
atgc intronic sequence ATGC exonic sequenceATTGATGATGATGGGAACTGCTGATGAGATAGTGAAAGCTCCTGAGAAGGCCATTGTTTTTGCAGAGGATCTACCTGAAGAAGCGCTAGCCACTAATCTGgtatttacttttgactgctgattatgagtgtgcacgtgtgtaatcgttgttgttaacttttacaatgtttggaccctagagaaaatgcacgtttcataga...
Basic information
species | Arabidopsis thaliana |
transcript | AT1G51710.1 |
intron # | 4 |
splice site | 5' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: AT1G51710.1 (Arabidopsis thaliana), 5'ss of exon 4
lower sequence: LOC_Os01g36930.1 (Oryza sativa), 5'ss of exon 4
ATTGATGATGATGGGAACTGCTGATGAGATAGTGAAAGCTCCTGAGAAGGCCATTGTTTTTGCAGAGGATCTACCTGAAGAAGCGCTAGCCACTAATCTGgtatttacttttgactgctgattatgagtgtgcacgtg-tgtaatcgttgttgttaacttttacaatgtttggaccctagagaa---aatgcacgtttcataga
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ATTGATGATGATAGGTACAGCTGATGAGATTGTGAAAGCTCCAGAGAAAGGACCAGTATTTGTAGAGGATCTACCAGAAGAAGAGCAAGTGGTTGCACTGgtg----cgtttgacctctcaatttatgcttatctctactataataaaagaagctagtagttatggtggcggcgagttcgccaacccactactagtctactact
upper sequence: AT1G51710.1 (Arabidopsis thaliana), 5'ss of exon 4
lower sequence: GRMZM2G017086_T01 (Zea mays), 5'ss of exon 4
ATTGATGATGATGGGAACTGCTGATGAGATAGTGAAAGCTCCTGAGAAGGCCATTGTTTTTGCAGAGGATCTACCTGAAGAAGCGCTAGCCACTAATCTGgtatttacttttgactgctgattatgagtgtgcacgtgtgtaatcgttgttgttaacttttacaatgtttggaccctagagaaaatgcacgtttcataga------
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GTTGATGATGATAGGCACGGCTGATGAGATTGTGAAAGCTCCGGAGAAAGGTCCAGTGTTTGTTGAGGATCTACCAGAAGAAGAGCAAGTGATTGCACTGgtacataccagatgccact--ctgtgcatgtgc-tgcctgttcttagt-ttgttctttattaccatatctg--ctaacaaatgaatggttagtttgttaatcatag
upper sequence: AT1G51710.1 (Arabidopsis thaliana), 5'ss of exon 4
lower sequence: Vv09s0002g02500.t01 (Vitis vinifera), 5'ss of exon 4
ATTGATGATGATGGGAACTGCTGATGAGATAGTGAAAGCTCCTGAGAAGGCCATTGTTTTTGCAGAGGATCTACCTGAAGAAGCGCTAGCCACTAATCTGgtatttacttttgactgctgattatgagtgtgcacgtgtgtaatcgttgttgttaacttttacaa---tgtttggaccctagagaaaatgcacgtttcataga
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ATTGATGATGATGGGAACTGCAGATGAGATTGTTAAGGCCCCGGAGAAGGGCCCTGTTTTCATGGAGGATCTTCCTGAAGAAGAGCAAGTGGTAGCTGTGgtaag-atccatgact--ttatcttttactaaaacaaattggagggttgtctcttccttcccaaaccttgtttgaactctcggaggagaataaaatggatccaMapped 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|164111574|gb|ES052367.1|ES052367EST: CCATTGTTTTTGCAGAGGATCTACCTGAAGAAGCGCTAGCCACTAATCTG GGTTACAGTGCTGGCCTTGTCAATCTTGGCAACACGTGTTACATGAACTC
genomic: CCATTGTTTTTGCAGAGGATCTACCTGAAGAAGCGCTAGCCACTAATCTGgtatttactt ... ttgatttcagGGTTACAGTGCTGGCCTTGTCAATCTTGGCAACACGTGTTACATGAACTC
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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
ATTGATGATGATGGGAACTGCTGATGAGATAGTGAAAGCTCCTGAGAAGGCCATTGTTTTTGCAGAGGATCTACCTGAAGAAGCGCTAGCCACTAATCTGgtatttacttttgactgctgattatgagtgtgcacgtgtgtaatcgttgttgttaacttttacaatgtttggaccctagagaaaatgcacgtttcataga
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGAGGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GAGGAT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - CTGAAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TGAAGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGAAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGAAGC