Sequence
atgc intronic sequence ATGC exonic sequenceTGGTTTGGTGAGGGAGAGAAGTACGTTAAAGCTGTTTTCTCTTTAGCAAGTAAGATAGCTCCAAGCGTCATTTTTGTTGATGAGgtatgttgctagacgttaagaacagctctcatacctgtttattacagttcctttttctttctgaatatcttttgaacgggatcaaaattatgtag
Basic information
species | Arabidopsis thaliana |
transcript | AT1G02890.1 |
intron # | 22 |
splice site | 5' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: AT1G02890.1 (Arabidopsis thaliana), 5'ss of exon 22
lower sequence: LOC_Os11g43970.1 (Oryza sativa), 5'ss of exon 23
TGGTTTGGTGAGGGAGAGAAGTACGTTAAAGCTGTTTTCTCTTTAGCAAGTAAGATAGCTCCAAGCGTCATTTTTGTTGATGAGgtatgttgctagacgttaagaacagctctcatacctgtttattacagttcctttttctttctgaatatcttttgaacgggat-caaaattatgtag
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TGGTTTGGCGAAGGAGAGAAATATGTAAAAGCTGTTTTCTCATTAGCAAGTAAAATAGCTCCAAGCGTTATATTCATTGATGAGgtatgct--tgagcatgtgggttggttttattgtc-----atta--gtgatttatttggtcacggtatgatccatacaaaatgcaacatttggcag
upper sequence: AT1G02890.1 (Arabidopsis thaliana), 5'ss of exon 22
lower sequence: GRMZM2G354532_T01 (Zea mays), 5'ss of exon 2
---------TGGTTTGGTGAGGGAGAGAAGTACGTTAAAGCTGTTTTCTCTTTAGCAAGTAAGATAGCTCCAAGCGTCATTTTTGTTGATGAGgtatgttgctagac--gttaagaacagctctca-tacctgtttattacagttcctttttctttctgaatatcttttgaacgggatcaaaattatgtag
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GCTAACCAGTGGTTTGGTGAAGGGGAGAAGTATGTAAAGGCTGTTTTCTCACTAGCAAGTAAAATAGCACCCAGTGTTATATTTATTGATGAGgtatgcaagcacacaagtttactttagtaaccactaccggcacagtatataccaacttctttttttgac-tttctggag-------------------
upper sequence: AT1G02890.1 (Arabidopsis thaliana), 5'ss of exon 22
lower sequence: GRMZM2G126453_T02 (Zea mays), 5'ss of exon 8
TGGTTTGGTGAGGGAGAGAAGTACGTTAAAGCTGTTTTCTCTTTAGCAAGTAAGATAGCTCCAAGCGTCATTTTTGTTGATGAGgtatgttgctagac--gttaagaacagctctca-tacctgtttattacagttcctttttctttctgaatatcttttgaacgggatcaaaattatgtag
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TGGTTTGGTGAAGGGGAGAAGTATGTAAAGGCTGTTTTCTCACTAGCAAGTAAAATAGCACCCAGTGTTATATTTATTGATGAGgtatgcaagcacacaagtttactttagtaaccactaccggcacagtatataccaactttttttttgactttctgcag---------------------
upper sequence: AT1G02890.1 (Arabidopsis thaliana), 5'ss of exon 22
lower sequence: GRMZM2G435582_T01 (Zea mays), 5'ss of exon 3
TGGTTTGGTGAGGGAGAGAAGTACGTTAAAGCTGTTTTCTCTTTAGCAAGTAAGATAGCTCCAAGCGTCATTTTTGTTGATGAGgtatgttgctagac--gttaagaacagctctca-tacctgtttattacagttcctttttctttctgaatatcttttgaacgggatcaaaattatgtag
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TGGTTTGGTGAAGGGGAGAAGTATGTAAAGGTTGTTTTCTCACTAGCAAGTAAAATAGCACCCAGTGTTATATTTATTGATGAGgtatgcaagcacacaagtttactttagtaatcactaccggcacagtatataccaacttctttttttttgactttctgcag------------------
upper sequence: AT1G02890.1 (Arabidopsis thaliana), 5'ss of exon 22
lower sequence: GRMZM2G052403_T01 (Zea mays), 5'ss of exon 14
TGGTTTGGTGAGGGAGAGAAGTACGTTAAAGCTGTTTTCTCTTTAGCAAGTAAGATAGCTCCAAGCGTCATTTTTGTTGATGAGgtatgttgctagac-gttaagaacagctctca-tacctgtttattacagttcctttttctttctgaatatcttttgaacgggatcaaaattatgtag
||||||||||| || |||||||| || || ||||||||||| |||||||||| ||||| || || || || ||| | ||||||||||| |||| | | | | || || | || | | | | | ||||| || | ||| |
TGGTTTGGTGAAGGGGAGAAGTATGTAAAGGCTGTTTTCTCACTAGCAAGTAAAATAGCCCCCAGTGTTATATTTATCGATGAGgtatgcaagcagacaggttacattagtaaacactgttggtacagtgtacaccaactgtcttt--gactttctgcag---------------------
upper sequence: AT1G02890.1 (Arabidopsis thaliana), 5'ss of exon 22
lower sequence: GLYMA10G02400.1 (Glycine max), 5'ss of exon 22
TGGTTTGGTGAGGGAGAGAAGTACGTTAAAGCTGTTTTCTCTTTAGCAAGTAAGATAGCTCCAAGCGTCATTTTTGTTGATGAGgtatgttgctagacgttaagaacagctctcatacctgttta--ttacagttcctttttctttctgaatatcttttgaacgggatcaaaattatgtag-------
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TGGTTTGGTGAAGGAGAGAAGTATGTCAAAGCTGTCTTTTCTCTAGCCAGCAAAATTGCTCCAAGTGTTATTTTTGTTGACGAGgt----tgctttatcatgtcatttgtttatattcctttgaagttctcttttcctttattttaaatattatttttaatactttttagaattcatatgagccatttMapped 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|125148436|gb|EL182107.1|EL182107EST: TTTTCTCTTTAGCAAGTAAGATAGCTCCAAGCGTCATTTTTGTTGATGAG GTTGATAGCATGCTGGGAAGACGTGAGAATCC
genomic: TTTTCTCTTTAGCAAGTAAGATAGCTCCAAGCGTCATTTTTGTTGATGAGgtatgttgct ... aattatgtagGTTGATAGCATGCTGGGAAGACGTGAGAATCC
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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
TGGTTTGGTGAGGGAGAGAAGTACGTTAAAGCTGTTTTCTCTTTAGCAAGTAAGATAGCTCCAAGCGTCATTTTTGTTGATGAGgtatgttgctagacgttaagaacagctctcatacctgtttattacagttcctttttctttctgaatatcttttgaacgggatcaaaattatgtag
- - - - - - - - - - - - - - - - - - - - - - AGCAAG