Sequence
atgc intronic sequence ATGC exonic sequenceCAAACGCGATAGTTCATTTGCGAGCAAGGTGAAGAAAATTGTTATTCTTGGTGGAGCTTTCTTTTCTTTGGGAAATGTCAATCCTGCAGCTGAGGCTAATgtaacccctccttgtaacctcatcttaatcttctgttaatgaaaaaggaaatgctggtttcattttgttggtctctgttctatatgcag
Basic information
species | Arabidopsis thaliana |
transcript | AT2G36310.1 |
intron # | 5 |
splice site | 5' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: AT2G36310.1 (Arabidopsis thaliana), 5'ss of exon 5
lower sequence: GRMZM2G015344_T02 (Zea mays), 5'ss of exon 5
CAAACGCGATAGTTCATTTGCGAGCAAGGTGAAGAAAATTGTTATTCTTGGTGGAGCTTTCTTTTCTTTGGGAAATGTCAATCCTGCAGCTGAGGCTAATgtaacccctccttgtaacctcatcttaatcttctgttaatgaaaaaggaaatgctggtttcattttgttggtctctgttctatatgcag
|||| | || ||| ||||| |||||||| |||||||| ||| | || ||||||||||||||| | ||||||||||| ||||| ||||| || |||||| | | || ||| || ||| | || | || || | | || || | |||||
CAAAAGAGACCCTTCCTTTGCAAGCAAGGTTAAGAAAATAGTTGTACTGGGTGGAGCTTTCTTTGCGGCTGGAAATGTCAACCCTGCTGCTGAAGCAAATgtatgataacat----actgcattata--cttgaggaggctaatactttaacataagtattgaaccttgagtgc--attacac-tgcag
upper sequence: AT2G36310.1 (Arabidopsis thaliana), 5'ss of exon 5
lower sequence: GLYMA19G37830.1 (Glycine max), 5'ss of exon 5
CAAACGCGATAGTTCATTTGCGAGCAAGGTGAAGAAAATTGTTATTCTTGGTGGAGCTTTCTTTTCTTTGGGAAATGTCAATCCTGCAGCTGAGGCTAATgtaacccctccttgtaacctcatcttaatcttctgttaatgaaaaaggaaatg-ctggttt-cattttgttggtctctgttctatatgcag---------
|||||| ||| | | ||||| ||||| ||||||| ||| |||||||||||||| || |||||| | ||||| ||||| |||||||| || || || ||||||| | || | | |||| || ||||| | | | || ||| ||||| | || | | | || |
CAAACGAGATTCTGCGTTTGCAAGCAAAGTGAAGAGAATAGTTATTCTTGGTGGTGCATTCTTTGCCTTGGGGAATGTGAATCCTGCTGCAGAAGCAAATgtaagtggtgattcctgttagttgtgtttctttgagtaggaaaaaaaaatacgactaatttgcatttggcctttccatttatattttgtaagtttcttat
upper sequence: AT2G36310.1 (Arabidopsis thaliana), 5'ss of exon 5
lower sequence: Vv08s0007g03690.t01 (Vitis vinifera), 5'ss of exon 5
CAAACGCGATAGTTCATTTGCGAGCAAGGTGAAGAAAATTGTTATTCTTGGTGGAGCTTTCTTTTCTTTGGGAAATGTCAATCCTGCAGCTGAGGCTAATgtaacccctccttgtaacctcatcttaatcttctgttaatgaaaaaggaaatgctggttt---cattttgttggtctctgttctatatgcag---------
||| | || || |||||||||||||||||||| | || | |||||||| ||||||||| | ||||||||||||||||||| || || |||||||| | || | ||| | ||| ||| | || | | | ||| || || ||| ||| | | | ||
TAAAAGGGACTCGTCCTTTGCGAGCAAGGTGAAGAAGGTGGTCGTACTTGGTGGTGCTTTCTTTGCACTGGGAAATGTCAATCCTGCTGCCGAAGCTAATgtgagtgctaaat-caactttatcagtgacttatagtagacatacgtgcctcaatgggttgtccagttttttgtagtggagtgaagattttacctttgtgcMapped 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|116442244|gb|EG484836.1|EG484836EST: GTGGAGCTTTCTTTTCTTTGGGAAATGTCAATCCTGCAGCTGAGGCTAAT ATATATGGTGA
genomic: GTGGAGCTTTCTTTTCTTTGGGAAATGTCAATCCTGCAGCTGAGGCTAATgtaacccctc ... ctatatgcagATATATGGTGA
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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
CAAACGCGATAGTTCATTTGCGAGCAAGGTGAAGAAAATTGTTATTCTTGGTGGAGCTTTCTTTTCTTTGGGAAATGTCAATCCTGCAGCTGAGGCTAATgtaacccctccttgtaacctcatcttaatcttctgttaatgaaaaaggaaatgctggtttcattttgttggtctctgttctatatgcag
- - - - - - - - - - - - - - - - - - - - - - - - - GTGGAG
- - - - - - - - - - - - - - - - - - - - - - - - - - GGAGCT
- - - - - - - - - - - - - - - - - - - - - - - - - - GAGCTT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - CTGCAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GCAGCT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - CAGCTG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGCTGA