Sequence
atgc intronic sequence ATGC exonic sequencegtaagtcatgagctgtctgccatttcagaatttcatgtaaacgtttatcccaggattctgaaatgtctgctaactgatgcagAGACATATTCGAGAAGACCTGCTAGTTGCTGGGAAATTTGATATTTGTGTCACAAGCTTTGAGATGGCCATCAAAGAGAAGACAGCACTTCGTCGGTTTA
Basic information
species | Arabidopsis thaliana |
transcript | AT3G06400.2 |
intron # | 6 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: AT3G06400.1 (Arabidopsis thaliana), 3'ss of exon 6
lower sequence: GLYMA13G28720.1 (Glycine max), 3'ss of exon 6
--------gtaagtcatgagctgt-ctgccatttcagaatttcatgtaaacgtttatccca----ggattctgaaatgtctgctaactgatgcagAGACATATTCGAGAAGACCTGCTAGTTGCTGGGAAATTTGATATTTGTGTCACAAGCTTTGAGATGGCCATCAAAGAGAAGACAGCACTTCGTCGGTTTA
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gtaagaccatcttttctgggttgaattattgtggcaaaggttacaattgatgcttaatttgaactgtttttcctaatggttttgacttgctgcagAGACATATCAGAGATGAATTGTTGGTTGCCGGGAAGTTTGATGTTTGTGTCACAAGTTTTGAAATGGCAATCAAGGAGAAGTCTGCTTTGCGTCGATTTA
upper sequence: AT3G06400.1 (Arabidopsis thaliana), 3'ss of exon 6
lower sequence: GLYMA15G10370.1 (Glycine max), 3'ss of exon 6
--------gtaagtcatgagctgt-ctgccatttcagaatttcatgtaaacgtttatccca----ggattctgaaatgtctgctaactgatgcagAGACATATTCGAGAAGACCTGCTAGTTGCTGGGAAATTTGATATTTGTGTCACAAGCTTTGAGATGGCCATCAAAGAGAAGACAGCACTTCGTCGGTTTA
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gtaagaccatctttactgagttgaattattgtggcaaaggttacagttgatgcttaatttgaactgtttttcctaatggttttgacttgctacagAGACATATCAGAGATGAATTGTTGGTTGCCGGGAAGTTTGATGTTTGTGTCACAAGTTTTGAAATGGCAATCAAGGAGAAGTCTGCTTTGCGTCGATTTA
upper sequence: AT3G06400.1 (Arabidopsis thaliana), 3'ss of exon 6
lower sequence: Vv05s0020g01780.t01 (Vitis vinifera), 3'ss of exon 6
gtaagtcatgagctgtctgccatttcag-aatttcatgtaaacgttta---tcccaggattctgaaatgtctgctaactgatgcagAGACATATTCGAGAAGACCTGCTAGTTGCTGGGAAATTTGATATTTGTGTCACAAGCTTTGAGATGGCCATCAAAGAGAAGACAGCACTTCGTCGGTTTA
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gtgtgtcattcaggccctgctttcagagtaattctttttttatttacagttttccactgcactttgctaacacttcgtctctgcagAGGCATATACGTGACAATTTACTGGTTGCTGGGAAATTTGATGTCTGTGTCACTAGTTTCGAGATGGCCATCAAAGAGAAAACTACATTGCGACGCTTTAMapped 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|116481378|gb|EG523970.1|EG523970EST: TTTGTCCTGTCCTACGTGCTGTGAAGTTCCTTGGTAATCCTGAGGAGAGG AGACATATTCGAGAAGACCTGCTAGTTGCTGGGAAATTTGATATTTGTGTC
genomic: TTTGTCCTGTCCTACGTGCTGTGAAGTTCCTTGGTAATCCTGAGGAGAGGgtaagtcatg ... actgatgcagAGACATATTCGAGAAGACCTGCTAGTTGCTGGGAAATTTGATATTTGTGTC
atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.gaatttcatgtaaacgtttatcccaggattctgaaatgtctgctaactgatgcagAGACATATTCGAGAAGACCTGCTAGTTGCTGGGAAATTTGATATTTGTGTCACAAGCTTTGAGATGGCCATCAAAGAGAAGACAGCACTTCGTCGGTTTA
atgtaaa 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gtaagtcatgagctgtctgccatttcagaatttcatgtaaacgtttatcccaggattctgaaatgtctgctaactgatgcagAGACATATTCGAGAAGACCTGCTAGTTGCTGGGAAATTTGATATTTGTGTCACAAGCTTTGAGATGGCCATCAAAGAGAAGACAGCACTTCGTCGGTTTA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - CAAGCT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GAGATG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGAGA