Sequence
atgc intronic sequence ATGC exonic sequenceTGTGAAGCAGTTGGCAAGGTTGCAGATATAATTCAGATTCCAGCATTCTTATGTCGCCAGgtgagactctaaactgtattttcctcaaagcttttgattgtagctttcaaactgtcgatcttggattgatatctgttctatggttgatgatttaagttgttaattgtaattccacag
Basic information
species | Arabidopsis thaliana |
transcript | AT1G79500.5 |
intron # | 5 |
splice site | 5' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: AT1G79500.5 (Arabidopsis thaliana), 5'ss of exon 5
lower sequence: GLYMA18G48370.1 (Glycine max), 5'ss of exon 5
TGTGAAGCAGTTGGCAAGGTTGCAGATATAATTCAGATTCCAGCATTCTTATGTCGCCAGgtgagactctaaactgtattttcctcaaagcttttgattgtagctttcaaactgtcgatcttggattgatatctgttctatggttgatgatttaagttgt--taattgtaattccacag
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-GTGAAGCAGTTGGCAGAGTTGCAGATATCATTCAGATTCCAGCATTCTTGTGTCGCCAAGtaaatatcta--ttgcattcaatttcaa--tatccattataattttctg---gttaaaatt---ttaatagatgtgccaacttcaattatttcattcattttatttctaatgacaga-
upper sequence: AT1G79500.5 (Arabidopsis thaliana), 5'ss of exon 5
lower sequence: GLYMA09G38010.1 (Glycine max), 5'ss of exon 6
TGTGAAGCAGTTGGCAAGGTTGCAGATATAATTCAGATTCCAGCATTCTTATGTCGCCAGgtgagactctaaactgtattttcctcaaagcttttgattgtagctttcaaactgtcgatcttggattgatatctgttctatggttgatgatttaagttgttaattgtaattccacag
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TGTGAAGCAGTTGGCAGAGTAGCAGATATCATTCAGATTCCAGCATTCTTGTGTCGCCAAgtaaatgttta--ttgcattcaatttcaa--tttccattataat----aggctg---gttaaaatttaatagatgtgccaacttcaattatttcattaattttgcttcttatgacag
upper sequence: AT1G79500.5 (Arabidopsis thaliana), 5'ss of exon 5
lower sequence: Vv19s0085g00720.t01 (Vitis vinifera), 5'ss of exon 5
TGTGAAGCAGTTGGCAAGGTTGCAGATATAATTCAGATTCCAGCATTCTTATGTCGCCAGgtgagactc-taaactgtattt--tcctcaaagcttttgattgtagctttcaaactgtcgatcttggattgatatctgttctatggttga-tgatttaagttgttaattgtaattccacag
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TGTGAACCAGTTGGCAGAGTTGCAGACATCATTCAGATTCCAGCTTTCCTCTGTCGTCAGgttgaaccaatattttgtttctcattttcaatgtcctggtgattctgttatgaggtccaaagagtgtgttttgatctgat--atgcttatctcattcaaa--gtctcttacaatgacag--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|163998526|gb|ES047080.1|ES047080EST: TGGTCAAGGTTGCAGATATAATTCAGATTCCAGCATTCTTATGTCGCCAG ACAGATCTTCTG
genomic: TGG-CAAGGTTGCAGATATAATTCAGATTCCAGCATTCTTATGTCGCCAGgtgagactct ... aattccacagACAGATCTTCTG
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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
TGTGAAGCAGTTGGCAAGGTTGCAGATATAATTCAGATTCCAGCATTCTTATGTCGCCAGgtgagactctaaactgtattttcctcaaagcttttgattgtagctttcaaactgtcgatcttggattgatatctgttctatggttgatgatttaagttgttaattgtaattccacag
- - - - - - - - - - GCAGAT