Sequence
atgc intronic sequence ATGC exonic sequenceACCCCGATTTCAGCTTGAATGTAGACCGCATCGCTGAAGTTGTAGAACTAGAAAAACCCAAATGCATATTCCTAACTTCTCCCAACAATCCAGATGGGAGgtaaaacaccaccactctaaacaactcgaaaggaaaaattctttttagtagtccgtcatgattattaatccgagtttctctttgatacag
Basic information
species | Arabidopsis thaliana |
transcript | AT1G71920.1 |
intron # | 6 |
splice site | 5' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: AT1G71920.1 (Arabidopsis thaliana), 5'ss of exon 6
lower sequence: GLYMA16G27220.1 (Glycine max), 5'ss of exon 6
ACCCCGATTTCAGCTTGAATGTAGACCGCATCGCTGAAGTTGTAGAACTAGAAAAACCCAAATGCATATTCCTAACTTCTCCCAACAATCCAGATGGGAGgtaaaacaccaccactctaaacaactcgaaag-gaaaaattctttttagtagtccgtcatgattattaatccgagtttctctttgatacag---------
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GGCCAGATTTCAGCTTGAATGTTGAACAAATTGCTGAAGTTGTTAAACAAGAGAAGCCCAAATGCATATTTTTAACATCTCCAAATAATCCAGATGGAAGgtaactgtcaattatcctttcttactctagagtgaatagttagaaagggtacctggagttgtatgtttgtagtgttttctttttcaactaatttgttttt
upper sequence: AT1G71920.1 (Arabidopsis thaliana), 5'ss of exon 6
lower sequence: Vv18s0072g00940.t01 (Vitis vinifera), 5'ss of exon 6
ACCCCGATTTCAGCTTGAATGTAGACCGCATCGCTGAAGTTGTAGAACTAGAAAAACCCAAATGCATATTCCTAACTTCTCCCAACAATCCAGATGGGAGgtaa------aacaccaccactctaaacaactcgaaaggaaaaattctttttagtagtccgtcatgattattaatccgagttt---ctctttgatacag-
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ATTCAGACTTCAGTCTGAATTTAGAGGCCATTGCTGATGTTGTTGAGAAGGAGAAACCAAAATGCATATTCCTAACTTCTCCCAACAACCCAGATGGAAGgtaattctcaattgttactgtttcacaaacgttattttttaggatacaaagtaccaaaatggtgacatattttcttcttgtttattttttttgatagacaMapped 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|124993306|gb|EL065575.1|EL065575EST: GAAAAACCCAAATGCATATTCCTAACTTCTCCCAACAATCCAGATGGGAG TATCATCAGCGAGGACGATCTGTTGAAGATTCTAGAAATG
genomic: GAAAAACCCAAATGCATATTCCTAACTTCTCCCAACAATCCAGATGGGAGgtaaaacacc ... tttgatacagTATCATCAGCGAGGACGATCTGTTGAAGATTCTAGAAATG
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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
ACCCCGATTTCAGCTTGAATGTAGACCGCATCGCTGAAGTTGTAGAACTAGAAAAACCCAAATGCATATTCCTAACTTCTCCCAACAATCCAGATGGGAGgtaaaacaccaccactctaaacaactcgaaaggaaaaattctttttagtagtccgtcatgattattaatccgagtttctctttgatacag
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - CAGATG