Sequence
atgc intronic sequence ATGC exonic sequence...tcaactgactctacttgtctagatattgttacatccagtggatatatagcccatgaataatatgttctttctattatttttgtcttactgtttcttacagGTCTACAAGCGGAGTTACGATGTGTGCACACAACTATATGAGAAAGAGTTATTGACCGAGAATTCATATCTTCACGTATATGG
Basic information
species | Arabidopsis thaliana |
transcript | AT5G35910.1 |
intron # | 7 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: AT5G35910.1 (Arabidopsis thaliana), 3'ss of exon 7
lower sequence: GLYMA17G24130.1 (Glycine max), 3'ss of exon 8
-tcaactgactctacttgtctagatattgttacatccagtggatatatagccca-tgaataatatgttctttctattatttttgtcttactgtttcttacagGTCTACAAGCGGAGTTACGATGTGTGCACACAACTATATGAGAAAGAGTTATTGACCGAGAATTCATATCTTCACGTATATGG
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gttctcaatctttaatcaaattgagat-acaatatg-accgaatggttggctcaatgaactttctttttggtttttgactggaatttcccttaaacctacagGTCTACAAACGCAGTTATGATGTCTGCATTCAGCTATATGAGAAAGAACTTTTGACAGAGAACTCCTATCTTCATATATATGG
upper sequence: AT5G35910.1 (Arabidopsis thaliana), 3'ss of exon 7
lower sequence: GLYMA05G11200.1 (Glycine max), 3'ss of exon 1
tcaactgactctacttgtctagatattgttacatccagtggatatatagccca-tgaataatatgttctttctattatt----tttgtcttactgtttcttacagGTCTACAAGCGGAGTTACGATGTGTGCACACAACTATATGAGAAAGAGTTATTGACCGAGAATTCATATCTTCACGTATATGG
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--ttctaaatct--ttaattaaattgagatacatg-actgaatggttgactcaatgaagtttctttttggcttttgactggaatttcccttgaaccaaccaacagGTCTACAAACGCAGTTATGATGTTTGCATGCAGCTATATGAGAAAGAATTTCTGACAGAGAACTCCTATCTTCATATATATGGMapped 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|86064860|gb|DR360617.1|DR360617EST: TGCAGAGAATGGCAAAGGATGACGAACATACTGACTCTCCTCTACTTGAG GTCTACAAGCGGAGTTACGATGTGTGCACACAACTATATGAGAAAGAGTTA
genomic: TGCAGAGAATGGCAAAGGATGACGCGCATACTGACTCTCCTCTACTTGAGgtagtcatca ... tttcttacagGTCTACAAGCGGAGTTACGATGTGTGCACACAACTATATGAGAAAGAGTTA
atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.atagcccatgaataatatgttctttctattatttttgtcttactgtttcttacagGTCTACAAGCGGAGTTACGATGTGTGCACACAACTATATGAGAAAGAGTTATTGACCGAGAATTCATATCTTCACGTATATGG
gtcttac putative branch site (score: 3)
tcttactgtttctt CT-rich tract
atgaataatatgttct 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
tcaactgactctacttgtctagatattgttacatccagtggatatatagcccatgaataatatgttctttctattatttttgtcttactgtttcttacagGTCTACAAGCGGAGTTACGATGTGTGCACACAACTATATGAGAAAGAGTTATTGACCGAGAATTCATATCTTCACGTATATGG
- - - - - - - - - - - - - - - acatcca
- - - - - - - - - - - - - - - - - - - - - - - - - ccatgaa