Sequence
atgc intronic sequence ATGC exonic sequenceATGCTTCTAGAACCTCTTAAACAGCTGAAGCAAGCAGATGCTCGACTTAATATGACCCAAGGGGTTCTTGAAGGGgtgggtatgtgacacaacttcgtatctgtgagttttgataaaaaaaggtttggaattttaagtcctaatttgttttggctattgttgtgtagtag
Basic information
species | Arabidopsis thaliana |
transcript | AT1G26090.1 |
intron # | 3 |
splice site | 5' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: AT1G26090.1 (Arabidopsis thaliana), 5'ss of exon 3
lower sequence: GLYMA02G11250.1 (Glycine max), 5'ss of exon 2
ATGCTTCTAGAACCTCTTAAACAGCTGAAGCAAGCAGATGCTCGACTTAATATGACCCAAGGGGTTCTTGAAGGGgtgggtatgtgacacaacttcg-----------tatctgtgagttttgataaaaaaa---------ggtttggaattttaagtcctaatttgt--tttggctattgttgtgtagtag
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ATGCTTCTTGAACCTTTAAAACTTCTGAAGCAAGCAGATGCCCAACTCAATATGACTCAGGGCACACTTGGAGGGGTGGgtatgtaatatgctttcaatatcttattttatctat-atttatgatggacatatattcccttgatatagtttttataatagggatctgtcctcttttctttgtcatataatag
upper sequence: AT1G26090.1 (Arabidopsis thaliana), 5'ss of exon 3
lower sequence: Vv10s0003g05110.t01 (Vitis vinifera), 5'ss of exon 3
ATGCTTCTAGAACCTCTTAAACAGCTGAAGCAAGCAGATGCTCGACTTAATATGACCCAAGGGGTTCTTGAAGGGgtgggtatgtgacacaacttcgtatctgtgagttttgataaaaaaa--ggtttggaattttaagtcctaatt-------tgttttggctattgttgtgtagtag--------------------------------
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ATGCTTCTTGAACCACTACATCTACTGAAGAAAGCAAATGCAGAACTTAATATCACCCAAGGGGTTCTCGAAGGAgtgggtatgtaataaatacataggtctcttgatcttaattatctggttgaatttcatctataagggatagtggactgagtatttcactttcatctgtgaaggaatttcttatgcatttgtcttaattatgtagtagMapped 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|116387063|gb|EG429655.1|EG429655EST: TGAAGCAAGCAGATGCTCGACTTAATATGACCCAAGGGGTTCTTGAAGGG GTGGTTGGAGAAGAGCTAGGAGTACTTCCAGGGATGGATTCCATCTTTTCA
genomic: TGAAGCAAGCAGATGCTCGACTTAATATGACCCAAGGGGTTCTTGAAGGGgtgggtatgt ... tgtgtagtagGTGGTTGGAGAAGAGCTAGGAGTACTTCCAGGGATGGATTCCATCTTTTCA
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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
ATGCTTCTAGAACCTCTTAAACAGCTGAAGCAAGCAGATGCTCGACTTAATATGACCCAAGGGGTTCTTGAAGGGgtgggtatgtgacacaacttcgtatctgtgagttttgataaaaaaaggtttggaattttaagtcctaatttgttttggctattgttgtgtagtag
- - - - - - - - - - - - TGAAGC
- - - - - - - - - - - - - AAGCAA
- - - - - - - - - - - - - - AGCAAG
- - - - - - - - - - - - - - - - GCAGAT
- - - - - - - - - - - - - - - - - CAGATG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TTGAAG