Sequence
atgc intronic sequence ATGC exonic sequenceAGGTCAGGGCCATCCACAAGGAAACTCTGAACCATATTTTGGACCTTCGAAGAAACTTGATTTTGAGCTTGAGATGgtaagcatctgatgcctcagttatgtggatttgttttacaatgattcggttgatgctttttggtgctagttaagaataacggcattgacaaacctctcttttatcacatgatattcag
Basic information
species | Arabidopsis thaliana |
transcript | AT1G12050.1 |
intron # | 6 |
splice site | 5' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: AT1G12050.1 (Arabidopsis thaliana), 5'ss of exon 6
lower sequence: LOC_Os02g10310.3 (Oryza sativa), 5'ss of exon 5
AGGTCAGGGCCATCCACAAGGAAACTCTGAACCATATTTTGGACCTTCGAAGAAACTTGATTTTGAGCTTGAGATGgtaagcatctgatg-----cctcagttatgtggatttgttttacaatgattcggttga--tgctttttg-gtgctagttaagaat-aacggc--attgacaaacctctcttttatcacatgatattcag----------------------------------------------------------------------
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AGGGCAAGGCCATCCAACAGGAGATTCTCGACCTTATTTTGGTCCTTCTAAGAAGCTTGATTTTGAACTTGAGATGgttagtttcttacaaacctcttgactcacagtatttggtattcttgaactgttattgacatacctgttgcatgtttgttaaatttgagctgttggttgtcattgtggtataaaatctggccgtatgtaattagttatagatattttcatttcccctggatcaaatatatcataacgctttgttggcttgttgctttcag
upper sequence: AT1G12050.1 (Arabidopsis thaliana), 5'ss of exon 6
lower sequence: GRMZM2G029566_T02 (Zea mays), 5'ss of exon 5
AGGTCAGGGCCATCCACAAGGAAACTCTGAACCATATTTTGGACCTTCGAAGAAACTTGATTTTGAGCTTGAGATGgtaagcatctgatg---cctcagttatgtggatttgttttacaatgattcggttgatgctttttggtgctagttaaga-ataacggcattgacaaacctctcttttatcacatgatattcag
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GGGACAAGGACATCCAACAGGAAACTCCGCTCCTTATTTTGGTCCCTCGCAGAAGCTTGATTTTGAGCTTGAGATGgttagcttcttactaaccctagaccccatgtacttactctcttttgtggttgtaattggcctacctacctaattaagctgtcgagtcactttcagtaatt----------------------Mapped 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|164161647|gb|ES130261.1|ES130261EST: CTGAACCATATTTTGGACCTTCGAAGAAACTTGATTTTGAGCTTGAGATG GCTGCTGTGGTTGGTCCAGGAAATGAATTGGGAAAGCCTATTGACGT
genomic: CTGAACCATATTTTGGACCTTCGAAGAAACTTGATTTTGAGCTTGAGATGgtaagcatct ... tgatattcagGCTGCTGTGGTTGGTCCAGGAAATGAATTGGGAAAGCCTATTGACGT
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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
AGGTCAGGGCCATCCACAAGGAAACTCTGAACCATATTTTGGACCTTCGAAGAAACTTGATTTTGAGCTTGAGATGgtaagcatctgatgcctcagttatgtggatttgttttacaatgattcggttgatgctttttggtgctagttaagaataacggcattgacaaacctctcttttatcacatgatattcag
- - - - - - - - - - - - - - - - - - - - - - - CGAAGA
- - - - - - - - - - - - - - - - - - - - - - - - AAGAAA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GAGCTT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GAGATG