Sequence
atgc intronic sequence ATGC exonic sequenceATCCGTGGAATGCAATCGACTATATATGTGGAAATGGCTCCCGGGGTTAGAACCGAAGATTTACACCAGCAATTGAAGACGTCTTATGAGgtgatgattactcttatgttgtaagccaattactacttttgttacttattatgtttcaaaaatgttttgtag
Basic information
species | Arabidopsis thaliana |
transcript | AT2G19940.1 |
intron # | 12 |
splice site | 5' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: AT2G19940.2 (Arabidopsis thaliana), 5'ss of exon 11
lower sequence: GLYMA20G01220.1 (Glycine max), 5'ss of exon 11
ATCCGTGGAATGCAATCGACTATATATGTGGAAATGGCTCCCGGGGTTAGAACCGAAGATTTACACCAGCAATTGAAGACGTCTTATGAGgtgatgattactcttatgttgtaagccaattactacttttgttacttattatgtttcaaaaatgttt-tgtag---------------------------
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AGCCGTGGTATGCAATCAACTATTTATGTGGAAATGGCTCCAGGAGTGAGAATTGAGGACCTGTACCAGCAACTGAAGCTCTCATATGAGgtttatctttttatttcactacttgtcacctaccactagttttcaaaaatgtaatgtatgattgcatatatgccgacaaatacaaagaatgcaggttgaa
upper sequence: AT2G19940.2 (Arabidopsis thaliana), 5'ss of exon 11
lower sequence: GLYMA07G29630.1 (Glycine max), 5'ss of exon 12
ATCCGTGGAATGCAATCGACTATATATGTGGAAATGGCTCCCGGGGTTAGAACCGAAGATTTACACCAGCAATTGAAGACGTCTTATGAGgtgatgattactcttatgttgtaagccaattactacttttgttacttattatgtttcaaaaatgttttgtag-------------------------------
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AGCCGTGGTATGCAATCAACTATTTATGTGGAAATGGCTCCAGGAGTGAGAATTGAGGACCTGTACCAGCAACTGAAGCTCTCATATGAGgtt-tgtct--ttttatgtcactacttgtcacctacactagtttacaaaaatgtaatgtatgaattgcatatatgccaacaaatacaaagaatgcaggttgaaMapped 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|86085468|gb|DR381227.1|DR381227EST: CCGGGGTTAGAACCGAAGATTTACACCDGCAATTGAAGACGTCTTATGA
genomic: CCGGGGTTAGAACCGAAGATTTACACCAGCAATTGAAGACGTCTTATGA
EST:
gi|125055770|gb|EL125815.1|EL125815EST: CCGGGGTTAGAACCGAAGATTTACACCAGCAATTGAAGACGTCTTATGA
genomic: CCGGGGTTAGAACCGAAGATTTACACCAGCAATTGAAGACGTCTTATGA
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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
ATCCGTGGAATGCAATCGACTATATATGTGGAAATGGCTCCCGGGGTTAGAACCGAAGATTTACACCAGCAATTGAAGACGTCTTATGAGgtgatgattactcttatgttgtaagccaattactacttttgttacttattatgtttcaaaaatgttttgtag
- - - - - - - - - - - - - - - - - - - - - - - - - - CGAAGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TTGAAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TGAAGA