Sequence
atgc intronic sequence ATGC exonic sequenceTAAGCATGCTCGTTTGCATCTAGACGAGGTCAAACCCGAAGGTGTTGTCAATGAGGCTGTTGAACAAATAGCTTATGCAGATCGTATCATAGTTAACAAGgtaaccaaagttttgaacacaattgtctcaaagagaatgtgatagtttttgtgatcttgagtggttgaatctcttctatcataagattcaggtcgttcct...
Basic information
species | Arabidopsis thaliana |
transcript | AT1G80480.1 |
intron # | 4 |
splice site | 5' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: AT1G80480.1 (Arabidopsis thaliana), 5'ss of exon 4
lower sequence: GLYMA20G38450.1 (Glycine max), 5'ss of exon 4
TAAGCATGCTCGTTTGCATCTAGACGAGGTCAAACCCGAAGGTGTTGTCAATGAGGCTGTTGAACAAATAGCTTATGCAGATCGTATCATAGTTAACAAGgtaaccaaagttttgaacacaattgtctcaaagagaatgtgatagtttttgtgatcttgagtggttgaatctcttctatcataagattcaggtcgttcct----
||||||||| |||| ||||| || ||||| || || ||||||| |||||||||||||| ||||| || || |||||||||||||| || || || |||||| || | ||||| | |||| | | || | | | | | | | | ||| || || | | | || |
AAAGCATGCTGGTTTTCATCTTGATGAGGTTAAGCCAAAAGGTGTGGTCAATGAGGCTGTGGAACAGATTGCGTATGCAGATCGTATAATTGTAAATAAGgtattcactgatttgatc----ttgtggtagaatgactttagttctgctgcgtaaatgaaacatttggattatttaaggcttggtaactagccagccaactgat
upper sequence: AT1G80480.1 (Arabidopsis thaliana), 5'ss of exon 4
lower sequence: GLYMA10G43740.1 (Glycine max), 5'ss of exon 4
TAAGCATGCTCGTTTGCATCTAGACGAGGTCAAACCCGAAGGTGTTGTCAATGAGGCTGTTGAACAAATAGCTTATGCAGATCGTATCATAGTTAACAAGgtaaccaaagttttgaacacaattgtctcaaagagaatgtgatagtttttgtgatcttgagtggttgaatctcttctat--cataagattcaggtcgttcct--
||||||||| |||| ||||| || ||||| || || ||||||| |||||||||||||| ||||| || || ||||| |||||||| || || || |||||| || | || || |||| | | |||| | | | | || | | ||| || || | |||| | | | | | |
GAAGCATGCTGGTTTTCATCTTGATGAGGTTAAGCCAAAAGGTGTGGTCAATGAGGCTGTGGAACAGATTGCATATGCGGATCGTATAATTGTAAATAAGgtattcagtgatt----catccttgtggtagaatgaatttagttctgctgtggaaatgaaacatttggattatttacaaggcatatcagttatgacttggtaac
upper sequence: AT1G80480.1 (Arabidopsis thaliana), 5'ss of exon 4
lower sequence: PP1S31_130V6.1 (Physcomitrella patens), 5'ss of exon 4
TAAGCATGCTCGTTTGCATCTAGACGAGGTCAAACCCGAAGGTGTTGTCAATGAGGCTGTTGAACAAATAGCTTATGCAGATCGTATCATAGTTAACAAGgtaaccaaagttttgaacacaatt-gtctcaaagagaatgt-gatagtttttg--tgatcttgagtggttgaatctcttctatcataagattcaggtcgttcct
|| ||||| | |||| |||| || || ||||| || ||||| || ||||||||||| |||||||| |||||||| ||||| || || | ||||||||| | | || || | | |||| ||||| || | ||| | || || | || | | || | || ||
CAAACATGCGACTCAGCATATAGAGGAAGTGAAACCTGATGGTGTAGTGAATGAGGCTGTGGAACAAATCGCTTATGCGGATCGCATTATTTTGAACAAGgtattcta--cttagagtggattcagtctttgagagagagttgctagacaacagataggaatgtgtattataagtgaaagaaatgagaatttgacatcagtc--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|125253176|gb|EL267261.1|EL267261EST: AGATCGTATCATAGTTAACAAG ACTGATCTTGTTGGTGAGGCGGAATTAGGTTCGGTGGTACAACGCATAAAG
genomic: AGATCGTATCATAGTTAACAAGgtaaccaaag ... tttgttgcagACTGATCTTGTTGGTGAGGCGGAATTAGGTTCGGTGGTACAACGCATAAAG
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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
TAAGCATGCTCGTTTGCATCTAGACGAGGTCAAACCCGAAGGTGTTGTCAATGAGGCTGTTGAACAAATAGCTTATGCAGATCGTATCATAGTTAACAAGgtaaccaaagttttgaacacaattgtctcaaagagaatgtgatagtttttgtgatcttgagtggttgaatctcttctatcataagattcaggtcgttcct
- - - - - - - - - - - - - - - - - - - - - - - - - - - GCTGTT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GCAGAT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - gaacacaa
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - caaagaga