Sequence
atgc intronic sequence ATGC exonic sequenceGCATCACCAACATGGAAGGTGGCAAGCTAGGATCGGAAGAGTCGCCGGTAACAAAGACCTCTACTTGGGAACTTTCGgtacattttccaataaaatctatatactataagatattaaatatacacaaatatatctaagtgaatcatacaaattatgtag
Basic information
species | Arabidopsis thaliana |
transcript | AT5G17430.1 |
intron # | 8 |
splice site | 5' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: AT5G17430.1 (Arabidopsis thaliana), 5'ss of exon 8
lower sequence: GLYMA10G31440.1 (Glycine max), 5'ss of exon 9
GCATCACCAACATGGAAGGTGGCAAGCTAGGATCGGAAGAGTCGCCGGTAACAAAGACCTCTACTTGGGAACTTTCGgtacatttt-ccaataaaatctatatactataagatat-taaatatacacaaatatatctaagtgaat-catacaaattatgtag---------------
||||||||||||||| || |||||||||||||| |||||||| || | |||||||| |||||||||||||||||| ||| | | | | | | | | || | | | | | ||||| |||||| || | || ||| | || | | |
GCATCACCAACATGGTAGATGGCAAGCTAGGATTGGAAGAGTAGCAGTCAACAAAGATCTCTACTTGGGAACTTTCAgtaaggaagactagtttttttttttttttggaacacacacacacacacacacatatatatatatatatatatatatatcaaatggtggaatagatcaatt
upper sequence: AT5G17430.1 (Arabidopsis thaliana), 5'ss of exon 8
lower sequence: GLYMA18G47980.1 (Glycine max), 5'ss of exon 10
GCATCACCAACATGGAAGGTGGCAAGCTAGGATCGGAAGAGTCGCCGGTAACAAAGACCTCTACTTGGGAACTTTCGgtacatttt--ccaataaaatctatatactataagatattaaatatacacaaatatatctaagtgaatcatacaaattatgtag---------------------
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-CACCATCAACATGGAAGATGGCAAGCGAGGATTGGAAGAGTTGCTGGCAACAAGGATCTCTACTTGGGAACTTTCAGtaatatttagttatttaatcctatgcaccaaaaatatctaaatatg-gcagtcttacctcac---attttacaattgatgctggctaaaaaaacattttagcat
upper sequence: AT5G17430.1 (Arabidopsis thaliana), 5'ss of exon 8
lower sequence: Vv04s0023g00950.t01 (Vitis vinifera), 5'ss of exon 7
GCATCACCAACATGGAAGGTGGCAAGCTAGGATCGGAAGAGTCGCCGGTAACAAAGACCTCTACTTGGGAACTTTCGgtacattttccaata-----aaatctatatactataagatattaaatatacacaa-atatatctaagtgaatcatacaaattatgtag
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ACACCATCAGcatgggagatggcaggcaaggattggaagagtcgcaggcaacaaagatctttacttgggaactttcagtgagtatatctatacttcaatatccccatcttcaaaaatgacaaagacctttgtcatggattgttgttcctttttctt-ttttgcagMapped 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|116428762|gb|EG471354.1|EG471354EST: TAGGATCGGAAGAGTCGCCGGTAACAAAGACCTCTACTTGGGAACTTTCG GCACACAGGAAGAGGCTGCTGAGGCTTATGACATTGCAGCCATTAAATTCA
genomic: TAGGATCGGAAGAGTCGCCGGTAACAAAGACCTCTACTTGGGAACTTTCGgtacattttc ... aattatgtagGCACACAGGAAGAGGCTGCTGAGGCTTATGACATTGCAGCCATTAAATTCA
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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
GCATCACCAACATGGAAGGTGGCAAGCTAGGATCGGAAGAGTCGCCGGTAACAAAGACCTCTACTTGGGAACTTTCGgtacattttccaataaaatctatatactataagatattaaatatacacaaatatatctaagtgaatcatacaaattatgtag
- - - - - - - - - - - - - - - - - GGAAGA