Sequence
atgc intronic sequence ATGC exonic sequenceGGAGGTGAGACAAATAGATGGCACAAAAATAAGTTATACCGCAAAGCACATATTGATTGCCACTGGCAGTCGGGCGCAAAAGCCTAATATTCCTGGACATgtaagtttctgtgttcatgttattttttttatctactatagtgtgatgtgcttggtatttatgaaatcattatcttcagagtaagtccggaaagatttta...
Basic information
species | Arabidopsis thaliana |
transcript | AT3G24170.3 |
intron # | 6 |
splice site | 5' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: AT3G24170.1 (Arabidopsis thaliana), 5'ss of exon 6
lower sequence: GLYMA16G27210.1 (Glycine max), 5'ss of exon 6
GGAGGTGAGACAAATAGATGGCACAAAAATAAGTTATACCGCAAAGCACATATTGATTGCCACTGGCAGTCGGGCGCAAAAGCCTAATATTCCTGGACATgtaagttt--ctgtgttcatgttattttttttatctactatagtgtgatg-tgcttggtatttatgaaatcattatcttcagagtaagt-ccggaaagatttta
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TGAGGTGACACAATTGGATGGCACTAAATTGTCCTACACAGCAAAGCACATATTGATTGCAACTGGCAGCAGGGCTCAACGTCCAAATATTCCTGGACAGgtgaatttgcctgttttgaaatatcattgcaaaatgatcttacttacatgattgtttctgtttgtgagtataatatttgatatgtacatgctaataagaa----
upper sequence: AT3G24170.1 (Arabidopsis thaliana), 5'ss of exon 6
lower sequence: Vv05s0051g00870.t01 (Vitis vinifera), 5'ss of exon 7
GGAGGTGAGACAAATAGATGGCACAAAAATAAGTTATACCGCAAAGCACATATTGATTGCCACTGGCAGTCGGGCGCAAAAGCCTAATATTCCTGGACATgtaagtttctgtgttcatgttattttttttatctactat--agtgtgatgtgcttgg--tatttatgaaatcattatcttcagagtaagtccggaaagatttta
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TGAGGTGACACAACTAGATGGCACTAAGTTGTGTTATTCAGCAAAGCACATATTGATTGCAACTGGTAGTAGGGCTCAACGTCCAACTATTCCAGGGCAGgtaaattt-tctgatcttctttccaatattgtttgagattgaatatggtatacacaaactggttttgaaattatgagtttaagatcctgatttcagtccat---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|116457529|gb|EG500121.1|EG500121EST: AGTCGGGCGCAAAAGCCTAATATTCCTGGACAT GAGCTGGCTATTACATCTGATGAAGCTTTGAGCTTGGAAGAATTTCCCAAG
genomic: AGTCGGGCGCAAAAGCCTAATATTCCTGGACATgtaagtttct ... tcttttatagGAGCTGGCTATTACATCTGATGAAGCTTTGAGCTTGGAAGAATTTCCCAAG
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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
GGAGGTGAGACAAATAGATGGCACAAAAATAAGTTATACCGCAAAGCACATATTGATTGCCACTGGCAGTCGGGCGCAAAAGCCTAATATTCCTGGACATgtaagtttctgtgttcatgttattttttttatctactatagtgtgatgtgcttggtatttatgaaatcattatcttcagagtaagtccggaaagatttta
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - ggaaagat