Sequence
atgc intronic sequence ATGC exonic sequenceTCTGGACATCATAAAGTCTGGTGAAGATTTTAGAATTGCAACAACCACAAAGATGCCTGAGCAAGGGACGTGTGAGCGATGCGGGTATATTTCTAGCCAGgtgagacctctcttttatcacatcaagtaaattgttttccataattagagttagtatatagtgtttgattgtttggattacaaatgatatgcag
Basic information
species | Arabidopsis thaliana |
transcript | AT2G44270.1 |
intron # | 9 |
splice site | 5' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: AT2G44270.1 (Arabidopsis thaliana), 5'ss of exon 9
lower sequence: LOC_Os02g52470.2 (Oryza sativa), 5'ss of exon 10
TCTGGACATCATAAAGTCTGGTGAAGATTTTAGAATTGCAACAACCACAAAGATGCCTGAGCAAGGGACGTGTGAGCGATGCGGGTATATTTCTAGCCAGgtgagacc----tctcttttatcacatcaagtaaattgttttc--cataattagagttagtatatagtgtttgattg-tttggattacaaatgatatgcag
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ACTGGACATCATAAAATCAGGTGAGAATTTTAGGATCTCCACAACAACAAGGATGCCAGAGCAAGGAACATGTGAACGTTGCGGCTACATTTCTAGTCAGgtatagtgatggtataatatgtattacctgttgacttgtttaggacatcctccttgctgatttactcaatgagactgatgttaattagagtaagtgaata-
upper sequence: AT2G44270.1 (Arabidopsis thaliana), 5'ss of exon 9
lower sequence: LOC_Os01g41565.1 (Oryza sativa), 5'ss of exon 9
TCTGGACATCATAAAGTCTGGTGAAGATTTTAGAATTGCAACAACCACAAAGATGCCTGAGCAAGGGACGTGTGAGCGATGCGGGTATATTTCTAGCCAGgtgagacctctcttttatcacat-caagtaaattg-ttttccataattagagttagtatatagtgtttgattgtttggattacaaatgatatgcag-----
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ACTGGACATCATAAAATCAGGTGAGAATTTTAGGATCTCCACAACAACAAGGATGCCAGAGCAAGGAACATGTGAACGTTGTGGCTACATTTCTAGTCAGgtatagtgatggtataataatatatatatatgttgactttttaggacctcttccttgctgatttactcaatgagactgat-gctaattagattaagtgaat
upper sequence: AT2G44270.1 (Arabidopsis thaliana), 5'ss of exon 9
lower sequence: GRMZM2G402242_T03 (Zea mays), 5'ss of exon 9
TCTGGACATCATAAAGTCTGGTGAAGATTTTAGAATTGCAACAACCACAAAGATGCCTGAGCAAGGGACGTGTGAGCGATGCGGGTATATTTCTAGCCAGgtgagacctctcttttatcacatcaagtaaattgttttccataattagagttagtatatagtgtttgattgtttggattacaa-atgatatgcag--------------
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ACTAGACATCATAAAATCCGGTGAAAATTTCAGAATCTCCACAACAACAAGGATGCCAGAGCAAGGAACGTGTGAACGATGTGGCTACATTTCTAGTCAGgta--------tcgtcatgaaattagttgaatt-cttactatgcatatggaacatgaatagtcgaacaccgcttttactaaggcacttcataaagctgttagtataattMapped 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|164191395|gb|ES116432.1|ES116432EST: AGATGCCTGAGCAAGGGACGTGTGAGCGATGCGGGTATATTTCTAGCCAG AAATGGTGTAAAGCTTGTGTTTTGCTGGAAGGACTGAACCGTGGTTTGCC
genomic: AGATGCCTGAGCAAGGGACGTGTGAGCGATGCGGGTATATTTCTAGCCAGgtgagacctc ... tgatatgcagAAATGGTGTAAAGCTTGTGTTTTGCTGGAAGGACTGAACCGTGGTTTGCC
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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
TCTGGACATCATAAAGTCTGGTGAAGATTTTAGAATTGCAACAACCACAAAGATGCCTGAGCAAGGGACGTGTGAGCGATGCGGGTATATTTCTAGCCAGgtgagacctctcttttatcacatcaagtaaattgttttccataattagagttagtatatagtgtttgattgtttggattacaaatgatatgcag
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGCAAG