Sequence
atgc intronic sequence ATGC exonic sequenceATAAACGCAGTTGTGTATTACTCCACATCGGTATTCCGTAGTGCGGGAATCCAATCAGATGTTGCAGCCAGTGCTCTCGTTGGAGCATCAAATGTCTTTGgttcgtttccccgttatgttctcattaaattccaaaaataaccaaaaaaataacacgataaaaatctggtcgcag
Basic information
species | Arabidopsis thaliana |
transcript | AT5G16150.1 |
intron # | 10 |
splice site | 5' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: AT5G16150.1 (Arabidopsis thaliana), 5'ss of exon 10
lower sequence: LOC_Os01g04190.1 (Oryza sativa), 5'ss of exon 10
ATAAACGCAGTTGTGTATTACTCCACATCGGTATTCCGTAGTGCGGGAATCCAATCAGATGTTGCAGCCAGTGCTCTCGTTGGAGCATCAAATGTCTTTGgttcgtttccccgtta----tgttctcattaaattccaaaaataaccaaaaaaataacacgataaaaatctggtcgcag
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ATAAATGCTGTTGTATATTACTCTACATCGGTGTTCCGCAGTGCAGGCATTGCATCTGATGTTGCAGCGAGTGCCCTTGTTGGAGCAGCCAATGTTTTTGgttagtccatgcttagaaagtattctagaatcaattttgaaatggcctttctgatggtat-atatatttctgatag---
upper sequence: AT5G16150.1 (Arabidopsis thaliana), 5'ss of exon 10
lower sequence: GRMZM2G153704_T07 (Zea mays), 5'ss of exon 8
ATAAACGCAGTTGTGTATTACTCCACATCGGTATTCCGTAGTGCGGGAATCCAATCAGATGTTGCAGCCAGTGCTCTCGTTGGAGCATCAAATGTCTTTGgttcgtttccccgttatgttctcattaaattccaaaaataaccaaaaaaataacacgataaaaat-ctggtcgcag-----------------
|||||||| ||||| |||||||| |||||||| ||||||||||| || || ||| |||||||| || |||||||| ||||||||| | ||||| |||||| |||| | |||| | | || | ||| || | || | | || || || ||| | ||| || |
ATAAACGCTGTTGTATATTACTCTACATCGGTGTTCCGTAGTGCAGGCATTGCATCTGATGTTGCTGCTAGTGCTCTTGTTGGAGCAGCCAATGTTTTTGgtaagtttactt-ttat-tagtaataagattttaatatcaattagagaagta-cagaatatgttttctgacggcggttattatttactcatag
upper sequence: AT5G16150.1 (Arabidopsis thaliana), 5'ss of exon 10
lower sequence: Vv14s0006g02720.t01 (Vitis vinifera), 5'ss of exon 10
ATAAACGCAGTTGTGTATTACTCCACATCGGTATTCCGTAGTGCGGGAATCCAATCAGATGTTGCAGCCAGTGCTCTCGTTGGAGCATCAAATGTCTTTGgt------tcgtttccccgttatgttctcattaaattccaaaaata-accaaaaaaataacacgataaaaatctggtcgcag------------
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ATAAATGCTGTGGTGTACTATTCAACATCTGTGTTCCGCAGTGCTGGAATTGCTTCTGATGTTGCAGCCAGTGCTCTTGTTGGGGCATCAAATGTCTTTGgtaatcctttttattctctctgatttcttgtaaaattttgatttcatactttgtagagaatgttttacatgactggattttgatcttcttacagMapped 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|116412120|gb|EG454712.1|EG454712EST: CCAATCAGATGTTGCAGCCAGTGCTCTCGTTGGAGCATCAAATGTCTTTG GCACTGCTGTTGCTTCATCGTTGATGGATAAAATGGGAAGGAAAAGTCTTT
genomic: CCAATCAGATGTTGCAGCCAGTGCTCTCGTTGGAGCATCAAATGTCTTTGgttcgtttcc ... ctggtcgcagGCACTGCTGTTGCTTCATCGTTGATGGATAAAATGGGAAGGAAAAGTCTTT
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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
ATAAACGCAGTTGTGTATTACTCCACATCGGTATTCCGTAGTGCGGGAATCCAATCAGATGTTGCAGCCAGTGCTCTCGTTGGAGCATCAAATGTCTTTGgttcgtttccccgttatgttctcattaaattccaaaaataaccaaaaaaataacacgataaaaatctggtcgcag
- - - - - - - - - - - - - - - - - - - - - - - - - - - CAGATG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TTGGAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GGAGCA