Sequence
atgc intronic sequence ATGC exonic sequenceTGTTGTTACGACTACAACTCACAAATCGCTTCGCGGTCCTAGAGGGGCTATGATATTCTTTAGGAAGGGGTTAAAAGAGATTAACAAACAAGGGAAAGAGgtgaatttttcgtttctatattgtatatgaatgagtaaataacttccagttactgactaattttatgtcgtttgtaactttacctgatag
Basic information
species | Arabidopsis thaliana |
transcript | AT5G26780.1 |
intron # | 9 |
splice site | 5' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: AT5G26780.3 (Arabidopsis thaliana), 5'ss of exon 9
lower sequence: GLYMA02G38160.2 (Glycine max), 5'ss of exon 9
TGTTGTTACGACTACAACTCACAAATCGCTTCGCGGTCCTAGAGGGGCTATGATATTCTTTAGGAAGGGGTTAAAAGAGATTAACAAACAAGGGAAAGAGgtgaatttttcgtt------tctatattgtatatgaatgagtaaataacttccagttactgactaattttatgtcgtt----tgtaactttacctgatag--
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TGTTGTAACAACCACAACACATAAGTCACTTCGTGGACCACGTGGGGCTATGATTTTCTTCAGGAAGGGTGTGAAAGAGATAAACAAACAAGGGAAGGAAgtgagttttaaattataaatttaatgttttatggagataaggaattcaaaaatagggtaaaatacactttaaacccctgaagtatagcatttcc--ataact
upper sequence: AT5G26780.3 (Arabidopsis thaliana), 5'ss of exon 9
lower sequence: GLYMA14G36280.2 (Glycine max), 5'ss of exon 9
TGTTGTTACGACTACAACTCACAAATCGCTTCGCGGTCCTAGAGGGGCTATGATATTCTTTAGGAAGGGGTTAAAAGAGATTAACAAACAAGGGAAAGAGgtgaat------ttttcgtttctatattgtatatgaatgagtaaataacttccagttactgactaatttta--tgtc--gtttgtaac-tttacctgatag
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TGTTGTAACAACCACGACACATAAGTCACTTCGTGGACCACGTGGGGCTATGATTTTCTTCAGGAAGGGTGTGAAAGAGATAAACAAACAAGGGAAGGAAgtgagtttaaaattataaatttaatgttttacggagataaggaattcaaaaatagggtaaaatacactttaactgcctgaattatagcactttcatgact-
upper sequence: AT5G26780.3 (Arabidopsis thaliana), 5'ss of exon 9
lower sequence: Vv18s0001g07960.t01 (Vitis vinifera), 5'ss of exon 9
TGTTGTTACGACTACAACTCACAAATCGCTTCGCGGTCCTAGAGGGGCTATGATATTCTTTAGGAAGGGGTTAAAAGAGATTAACAAACAAGGGAAAGAGgtgaatttttcgtttctatattgtatatgaatgagtaaataacttccagttactgactaattttatgtcgt--ttgtaa-ctttacctgatag-----------
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TATTGTGACAACCACAACACATAAGTCTCTACGTGGGCCACGTGGAGCAATGATATTCTTCAGGAAGGGGGTTAAAGAGATCAACAAACAAGGGAAAGAAgtgagtctt--gatgtaaaataatgaaaagac-aacaaaca-ctagaagttactcatgctttagataccttagctgcaagcattgcttacccttactattgctaMapped 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|164213695|gb|ES162797.1|ES162797EST: TATTCTTTAGGAAGGGGTTAAAAGAGATTAACAAACAAGGGAAAGAG GTCATGTATGACTATTGAGGACAGAATTAATCAAGCTGTTTTTCCTGGACT
genomic: TATTCTTTAGGAAGGGGTTAAAAGAGATTAACAAACAAGGGAAAGAGgtgaattttt ... tacctgatagGTCATGTATGACTAT-GAGGACAGAATTAATCAAGCTGTTTTTCCTGGACT
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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
TGTTGTTACGACTACAACTCACAAATCGCTTCGCGGTCCTAGAGGGGCTATGATATTCTTTAGGAAGGGGTTAAAAGAGATTAACAAACAAGGGAAAGAGgtgaatttttcgtttctatattgtatatgaatgagtaaataacttccagttactgactaattttatgtcgtttgtaactttacctgatag
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGAGA