Sequence
atgc intronic sequence ATGC exonic sequenceTGTGGCTTCAAGATGTTTACTAGGGCTGCTGCTAGGAGACTTTTCACAAACGTCCATCTGAAAAGgtatatgagtaaatgaatcgatgatgataaactagcagtaaaaacatcaataagagtctcatctgactcggtctatgcgcag
Basic information
species | Arabidopsis thaliana |
transcript | AT2G39630.2 |
intron # | 9 |
splice site | 5' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: AT2G39630.1 (Arabidopsis thaliana), 5'ss of exon 9
lower sequence: LOC_Os03g60700.2 (Oryza sativa), 5'ss of exon 8
TGTGGCTTCAAGATGTTTACTAGGGCTGCTGCTAGGAGACTTTTCACAAACGTCCATCTGAAAAGgtatatgagtaaatg-aatcgatgatgataaactagcagtaaaaacatcaataagagtctcatctgactcggtctatgcgcag
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TGTGGTTTCAAGATGTTTACTCGAGCTGCTGCAAGGAAACTTTTTACAAATATCAGATTGAAGAGgtacctttgttgttatgttctctaaatattgtcatgct-tctgtttatcaaatcctgtcttattt---ttggcgtgtaaccag
upper sequence: AT2G39630.1 (Arabidopsis thaliana), 5'ss of exon 9
lower sequence: GLYMA02G10150.2 (Glycine max), 5'ss of exon 9
TGTGGCTTCAAGATGTTTACTAGGGCTGCTGCTAGGAGACTTTTCACAAACGTCCATCTGAAAAGgtatatgagtaaatgaatcgatgatgataaactagcagtaaaaacatcaataagagtctcatc-tgactc-ggtctatgcgcag----------------
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TGTGGTTTCAAGATGTTTACTAGGGCTGCAGCCAGGAAGCTTTTTTCAAATGTACGCCTAAAAAGgtgactgttcttagatctctatagaaagcaataatttcttaaaatttgaaaggaaattgcttcataattccgaaataatagaaaactgattgttcttattMapped 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|125241467|gb|EL255552.1|EL255552EST: AAACGTCCATCTGAAAAG GTGGTGCTTTGATGTTGAATTGGTGTACTTGTGCAAGCGTTTTAATATACC
genomic: AAACGTCCATCTGAAAAGgtatatgagt ... ctatgcgcagGTGGTGCTTTGATGTTGAATTGGTGTACTTGTGCAAGCGTTTTAATATACC
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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
TGTGGCTTCAAGATGTTTACTAGGGCTGCTGCTAGGAGACTTTTCACAAACGTCCATCTGAAAAGgtatatgagtaaatgaatcgatgatgataaactagcagtaaaaacatcaataagagtctcatctgactcggtctatgcgcag
- - - - - - - - - - - - GCTGCT
- - - - - - - - - - - - - TGCTGC
- - - - - - - - - - - - - GCTGCT
- - - - - - - - - - - - - - - - AGGAGA