Sequence
atgc intronic sequence ATGC exonic sequenceTTGACGGAGGCTGAGATTAAACATCTTTGTTCTACCGCTAAGCAGATCTTTCTCACTCAACCTAATCTTCTTGAACTCGAGGCTCCTATTAAGATTTGTGgtattcattcatcaattttgttctctcctcttcaaattttcttttctacgaggatttgcgtagattatgtttgattatccatagaactagagattgatta...
Basic information
species | Arabidopsis thaliana |
transcript | AT1G64040.1 |
intron # | 1 |
splice site | 5' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: AT1G64040.1 (Arabidopsis thaliana), 5'ss of exon 1
lower sequence: GLYMA05G37370.1 (Glycine max), 5'ss of exon 1
TTGACGGAGGCTGAGATTAAACATCTTTGTTCTACCGCTAAGCAGATCTTTCTCACTCAACCTAATCTTCTTGAACTCGAGGCTCCTATTAAGATTTGTGgtattcattcatcaattttgttctctcctcttcaaattttcttttctacgaggatttgcgtagattatgtttgattatccatagaactagagattgatta
| |||||||| || ||| ||| || ||| | || | || |||||||||||| ||||||||||||||| |||||||||||||||||||||||||||||||| | | | ||| | | | || | | || | | ||| || ||||| | | | | | | ||| |
CTTACGGAGGCAGAAATTCGACAACTCTGTGTTTCCTCCAAAGAGATCTTTCTCAGTCAACCTAATCTTCTCGAACTCGAGGCTCCTATTAAGATTTGTGgtatatttactcgatatttccgattaattgattaattgtaaccttgcttgttgttttattagttttttgttttgtgctaattgtgaattgtgatgcgtgg
upper sequence: AT1G64040.1 (Arabidopsis thaliana), 5'ss of exon 1
lower sequence: GLYMA08G02180.1 (Glycine max), 5'ss of exon 1
TTGACGGAGGCTGAGATTAAACATCTTTGTTCTACCGCTAAGCAGATCTTTCTCACTCAACCTAATCTTCTTGAACTCGAGGCTCCTATTAAGATTTGTGgtattcattcatcaattttgttctctcctcttcaaattttcttttctacgaggatttgcgtagattatgtttgattatccatagaactagagattgatta
| || ||||| || ||| || || ||| | || | || |||||||||||| |||||||||||||| |||||||||||||||||||||||||||||||| || | | || | | | | | | || | | ||| | || | ||| | | | | | | ||| |
CTTACCGAGGCGGAAATTCGTCAACTCTGTGTTTCCTCCAAAGAGATCTTTCTCAGCCAACCTAATCTTCTCGAACTCGAGGCTCCTATTAAGATTTGTGgtatattttattgataattccgattaattgattcattgtaaccttgcttgttgttttattaattttttttttttgtgtaattgtgaattgtgatgtgtgg
upper sequence: AT1G64040.1 (Arabidopsis thaliana), 5'ss of exon 1
lower sequence: PP1S97_286V6.1 (Physcomitrella patens), 5'ss of exon 2
TTGACGGAGGCTGAGATTAAACATCTTTGTTCTACCGCTAAGCAGATCTTTCTCACTCAACCTAATCTTCTTGAACTCGAGGCTCCTATTAAGATTTGTGgtattcattcatcaattttgttctctcctcttcaaattttcttttctacgaggatttgcgtagattatgtttgattatcc----atagaactagagattgatta
|| |||||||||| || || || ||| | | | ||| | || ||| | | || ||||||||||| || ||||||||||| ||||||||||||||| | | | | | || | ||| | ||| | || || | | | || |||||||| || |||| | || | |||
CTGTCGGAGGCTGAAATCCGTCAGCTCTGTGTTGCATCGAAGGACATATTTTTGTCCCAGCCTAATCTTCTCGAGCTCGAGGCTCCAATTAAGATTTGTGgtttgccctgaac--ttgcactgcgtccgtcattcaacgtctacac-accagtcgtcgtgacgac-atgtttgagtagtacgagatagttgaataggtcttttaMapped 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|301502487|gb|HO208027.1|HO208027EST: TCTCACTCAACCTAATCTTCTTGAACTCGAGGCTCCTATTAAGATTTTTG GAGATACTCATGGTCAGTTCTCAGATCTTTTGAGATTGTTCGAGTATGGTG
genomic: TCTCACTCAACCTAATCTTCTTGAACTCGAGGCTCCTATTAAGATTTGTGgtattcattc ... tttttaatagGAGATACTCATGGTCAGTTCTCAGATCTTTTGAGATTGTTCGAGTATGGTG
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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
TTGACGGAGGCTGAGATTAAACATCTTTGTTCTACCGCTAAGCAGATCTTTCTCACTCAACCTAATCTTCTTGAACTCGAGGCTCCTATTAAGATTTGTGgtattcattcatcaattttgttctctcctcttcaaattttcttttctacgaggatttgcgtagattatgtttgattatccatagaactagagattgatta
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - ttctctcc