Sequence
atgc intronic sequence ATGC exonic sequencegttttgtgtctctgtctctctctctctcttttgagtttaaaatgtaattctgaacacgaaaagagaggattttgattttcgttgtggtactgttttgtgtagGCTCAACATGAGAGAGCAGATAATAGTGCACTAAAGGCAGAGAATGATAAAATTCGTTGCGAAAACATTGCTATTAGAGAAGCTCTCAAGCATGCTATAT
Basic information
species | Arabidopsis thaliana |
transcript | AT1G73360.1 |
intron # | 2 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: AT1G73360.1 (Arabidopsis thaliana), 3'ss of exon 2
lower sequence: GLYMA16G34350.1 (Glycine max), 3'ss of exon 2
--------------------------------------------------------------gt-tttgtgtctctgtctctctctctctc--ttttgagtttaaaa-tgta-attctgaacacgaaaagagaggattttgattttcgttgtggt--actgttttgtgtagGCTCAACATGAGAGAGCAGATAATAGTGCACTAAAGGCAGAGAATGATAAAATTCGTTGCGAAAACATTGCTATTAGAGAAGCTCTCAAGCATGCTATAT
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gtactgtttattatatttttatttaaagggttttaatgttgcgtttgtttatgtttttgtgtgtgtgtgtgtttgtgtgtttgtgtttttcaattatgattatgagactgtgtgtgtttcacttgatcatttttatttttctttgttctcttggttaattgaacaattcagGCTCAGCATGAGAGAGCTGATAATTGTGCACTCCGGGCAGAGAATGATAAGATACGTTGTGAGAACATAGCCATAAGGGAAGCCTTGAAAAATGTTATCT
upper sequence: AT1G73360.1 (Arabidopsis thaliana), 3'ss of exon 2
lower sequence: GLYMA09G29810.1 (Glycine max), 3'ss of exon 2
--------------------------------gttttgtgtctctgtctctctctctctct-tttgagtttaaaatgtaattctgaacacgaaaaga----gaggattttgattttcgttgtggtactgtt------ttg------tgtagGCTCAACATGAGAGAGCAGATAATAGTGCACTAAAGGCAGAGAATGATAAAATTCGTTGCGAAAACATTGCTATTAGAGAAGCTCTCAAGCATGCTATAT
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gtactgtttattatttttttaaaagggttttaatgttgtgtttttgtttatgtctttgtgtgtttcaattatgattatgagtctgtgtgtctgtttctcttgatcattttttttctttctttgttctttttggttaattggaacaattcagGCTCAGCATGAGAGAGCTGATAATTGTGCACTCCGGGCAGAGAATGACAAGATACGTTGTGAGAACATAGCCATAAGGGAAGCCTTGAAAAATGTTATCTMapped 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|164132128|gb|ES021841.1|ES021841EST: ACAGAAGAACTCAGCTTAAG GCTCAACATGAGAGAGCAGATAATAGTGCACTAAAGGCAGAGAATGATAAA
genomic: ACAGAAGAACTCAGCTTAAGgttttgtgtc ... ttttgtgtagGCTCAACATGAGAGAGCAGATAATAGTGCACTAAAGGCAGAGAATGATAAA
atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.ttctgaacacgaaaagagaggattttgattttcgttgtggtactgttttgtgtagGCTCAACATGAGAGAGCAGATAATAGTGCACTAAAGGCAGAGAATGATAAAATTCGTTGCGAAAACATTGCTATTAGAGAAGCTCTCAAGCATGCTATAT
ttttgat putative branch site (score: 4)
ctgtttt putative PPT
attttgatttt TA-rich tract
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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gttttgtgtctctgtctctctctctctcttttgagtttaaaatgtaattctgaacacgaaaagagaggattttgattttcgttgtggtactgttttgtgtagGCTCAACATGAGAGAGCAGATAATAGTGCACTAAAGGCAGAGAATGATAAAATTCGTTGCGAAAACATTGCTATTAGAGAAGCTCTCAAGCATGCTATAT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGAAGC