Sequence
atgc intronic sequence ATGC exonic sequence...gaagtgttaaactaatcattgtcaactaaatattataatggttgttaattaatttaataatactctaatgattgaaaaaatgttattaaattttgtgcagGTTGATAGGAAAAGTAGCTGCAGATCACAGTCACAAGTGGATTTATAAAGAACCTAATGACCAAGAGATTAACTTCTTATCTGCTTGGCATAATTCCGCT
Basic information
species | Arabidopsis thaliana |
transcript | AT1G60060.1 |
intron # | 3 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: AT1G60060.1 (Arabidopsis thaliana), 3'ss of exon 3
lower sequence: GLYMA02G03740.1 (Glycine max), 3'ss of exon 3
----gaagtgttaaac--taatcattgtcaactaaatattataatggttgttaattaatttaataatactctaatgattgaaaaaatgttat-------taaattttgt--------gcagGTTGATAGGAAAAGTAGCTGCAGATCACAGTCACAAGTGGATTTATAAAGAACCTAATGACCAAGAGATTAACTTCTTATCTGCTTGGCATAATTCCGCT
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gtatgcaatattaatcaacattcatttacttatttgtgtcacatttctcttgttttgctcttgaaagatgttcatcaaagcaaagaggttataggctaattaatcatgtctaatggagcagGTTGATAGGAAAAGTGGCTGCAGATCACAGCCACAAGTGGATATACAAAGAGCCTAATGATCAAGAAATCAACTTCTTGACAGCATGGCACAATTCAGCA
upper sequence: AT1G60060.1 (Arabidopsis thaliana), 3'ss of exon 3
lower sequence: GLYMA01G03940.1 (Glycine max), 3'ss of exon 3
-gaagtgttaaactaatcattgtcaactaa-------atattataatggttgttaattaatttaataatactctaatgattgaaaaaatg--ttattaaattttgt--------gcagGTTGATAGGAAAAGTAGCTGCAGATCACAGTCACAAGTGGATTTATAAAGAACCTAATGACCAAGAGATTAACTTCTTATCTGCTTGGCATAATTCCGCT
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gtatatgcaatattaatcaacattaatttacctatttgtgtcacatttctcttactttgttcttgaaagatgttcaaagctaagaggttgatttaattaattatgtttaatggagcagGTTGATAGGAAAAGTGGCTGCAGATCACAGCCACAAGTGGATAAACAAAGAGCCTAATGATCAAGAAATCAACTTCTTGTCAGCATGGCACAATTCAGCA
upper sequence: AT1G60060.1 (Arabidopsis thaliana), 3'ss of exon 3
lower sequence: Vv01s0026g00350.t01 (Vitis vinifera), 3'ss of exon 3
-------gaagtgttaaactaatcattgtcaactaaatattataatggttgttaattaatttaataatactctaatgattgaaaaaatgttattaaattttgt--gcagGTTGATAGGAAAAGTAGCTGCAGATCACAGTCACAAGTGGATTTATAAAGAACCTAATGACCAAGAGATTAACTTCTTATCTGCTTGGCATAATTCCGCT
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gtaataaagaatcgccacttcatttttcttctctatagatgttgattg--atcattcgccctgctagtgatttcacaagtaatcgaagaagattcaatcctgtcaacagTTTGATCGGAAAAGTGGCTGCAGATCAGAGTCATAAGTGGGTCTACAAAGAACCAAATGAACAAGAAATCAACTTCTTGTCTGCATGGCACAACTCAGCAMapped 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|164155631|gb|ES063379.1|ES063379EST: CCTGAATTGTTCTTCAAGATGTCTCATGAAATCTACAATTATGGAGAAGG GTTGATAGGAA
genomic: CCTGAATTGTTCTTCAAGATGTCTCATGAAATCTACAATTATGGAGAAGGgtctgtgagg ... ttttgtgcagGTTGATAGGAA
atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.taattaatttaataatactctaatgattgaaaaaatgttattaaattttgtgcagGTTGATAGGAAAAGTAGCTGCAGATCACAGTCACAAGTGGATTTATAAAGAACCTAATGACCAAGAGATTAACTTCTTATCTGCTTGGCATAATTCCGCT
ctctaat putative branch site (score: 3)
aatttaataatactct 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gaagtgttaaactaatcattgtcaactaaatattataatggttgttaattaatttaataatactctaatgattgaaaaaatgttattaaattttgtgcagGTTGATAGGAAAAGTAGCTGCAGATCACAGTCACAAGTGGATTTATAAAGAACCTAATGACCAAGAGATTAACTTCTTATCTGCTTGGCATAATTCCGCT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGAGA
- - - - aaactaa
- - - - - - - - - - - -aactaaa
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -actctaa
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -gaaaaaa