Sequence
atgc intronic sequence ATGC exonic sequencegctcgtctattgtctgctatagtttaaaaaaattctttgcttgctgttgttgtaaatttttttacttatcaacatatgaaataatgcagGTGGGAATGATCGGAGTAAGGCGGCTAGAGATTTGAGTGATCTAACTGGAGAAGGAAATATTGAAAGTATGCTTTCAGTTGAGATGGGTTTGAGAGAGCT
Basic information
species | Arabidopsis thaliana |
transcript | AT3G48860.1 |
intron # | 11 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: AT3G48860.1 (Arabidopsis thaliana), 3'ss of exon 11
lower sequence: GLYMA06G17390.1 (Glycine max), 3'ss of exon 11
--gctcgtctattgt--ctgctatagtttaaaaaaattctttgct--tgctgttgttgtaaat--ttttttacttatcaacatatgaaataatgcagGTGGGAATGATCGGAGTAAGGCGGCTAGAGATTTGAGTGATCTAACTGGAGAAGGAAATATTGAAAGTATGCTTTCAGTTGAGATGGGTTTGAGAGAGCT
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gtgagtatgagttggtactcagaaaattcatgtgaattatatatctctgaaattgtttacaatgatgtctaattaaagagcatg-gaccagGTGCTGATGGTCCAGATAGAAGCAAACTTGTTCGTGATTTGAATGATCTTGCTGGGGAAGGAAATATTGAGAGTATGCTCTCAGTTGAGATGGGTTTGAG------
upper sequence: AT3G48860.1 (Arabidopsis thaliana), 3'ss of exon 11
lower sequence: GLYMA04G37710.1 (Glycine max), 3'ss of exon 11
gctcgtctattgtctgctatagtttaaaaaaattctttg---cttgctgttgttgtaaatttttttacttatcaacatatgaaataa-tgcagGTGGGAATGATCGGAGTAAGGCGGCTAGAGATTTGAGTGATCTAACTGGAGAAGGAAATATTGAAAGTATGCTTTCAGTTGAGATGGGTTTGAGAGAGCT
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gtacgagttggtactcaaaaaattcatttgaattatatatgtctgaaaattttcacaatgatgtctaattaa-agtgcatggaccagGTGCTGATGGTCCAGATAGAAGCAAACTTGTTCGTGATTTGAATGATCTTGCTGGGGAAGGAAATATTGAGAGTATGCTCTCAGTTGAGATGGGTTTGAG------
upper sequence: AT3G48860.1 (Arabidopsis thaliana), 3'ss of exon 11
lower sequence: Vv17s0000g00390.t01 (Vitis vinifera), 3'ss of exon 11
--------gctcgtctattgtctgctatagtttaaaaaaattctttgcttgctgttgttgtaaatttttttac-ttat-caacatatgaaataatgcagGTGGGAATGATC------GGAGTAAGGCGGCTAGAGATTTGAGTGATCTAACTGGAGAAGGAAATATTGAAAGTATGCTTTCAGTTGAGATGGGTTTGAGAGAGCT
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gttagtttacttgttggttttacaactttattcatgactgttgtttaagttttcttttcatcgcttgtatttcattatgcattctatgtcatcctgcagGTGGTGAGGATCCAGATAGGAGTAAACTTGTCCGAGATTTGAGTGATCTAACCGGAGAAGGAAATATCGAGAGCATGCTTTCAGTTGAAATGGGTTTGAG------Mapped 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|47830493|gb|CK120177.1|CK120177EST: GCTCGTCACTTCAGCAGCACAGAAGGCGAAGGAGTTATCTTGGGATAAAG GTGGGAATGATCGGAGTAAGGCGGCTAGAGATTTGAGTGATCTAACTGGAG
genomic: GCTCGTCACTTCAGCAGCACAGAAGGCGAAGGAGTTATCTTGGGATAAAGgctcgtctat ... aataatgcagGTGGGAATGATCGGAGTAAGGCGGCTAGAGATTTGAGTGATCTAACTGGAG
atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.ctttgcttgctgttgttgtaaatttttttacttatcaacatatgaaataatgcagGTGGGAATGATCGGAGTAAGGCGGCTAGAGATTTGAGTGATCTAACTGGAGAAGGAAATATTGAAAGTATGCTTTCAGTTGAGATGGGTTTGAGAGAGCT
ttgtaaatttttttac 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gctcgtctattgtctgctatagtttaaaaaaattctttgcttgctgttgttgtaaatttttttacttatcaacatatgaaataatgcagGTGGGAATGATCGGAGTAAGGCGGCTAGAGATTTGAGTGATCTAACTGGAGAAGGAAATATTGAAAGTATGCTTTCAGTTGAGATGGGTTTGAGAGAGCT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGGAA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GAGATG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGAGCT