Sequence
atgc intronic sequence ATGC exonic sequenceTATTGTTGAGTGTGATAGGAAGATTGGTAGGGCTCTTAATCGTCTTCAAGAAGAGGATGCCAAAGCTGCCATTGCAATTTCTGTCACAGAATTTACTCAGgtgatgatctaagtttcaattcgttgagtttttttttgtgttttttttttcaactcaagcttttttttcatcatcatatcatcgttgtatcgcag
Basic information
species | Arabidopsis thaliana |
transcript | AT5G17440.1 |
intron # | 3 |
splice site | 5' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: AT5G17440.1 (Arabidopsis thaliana), 5'ss of exon 3
lower sequence: GLYMA09G38430.1 (Glycine max), 5'ss of exon 3
TATTGTTGAGTGTGATAGGAAGATTGGTAGGGCTCTTAATCGTCTTCAAGAAGAGGATGCCAAAGCTGCCATTGCAATTTCTGTCACAGAATTTACTCAGgtga----tgatctaagtttcaattcgttgagtttttttttgtgttttttttttcaactcaagcttttt-tttcatcatcatatcatcgttgtatcgcag
||||| ||||||||||||||| ||||| |||||||| || || || | || || ||||| ||||| || ||||||||||| ||| | ||| ||||||| |||| |||| | | | || |||| || | |||| ||| | | || ||| | | | ||
TATTGGTGAGTGTGATAGGAAAATTGGCAGGGCTCTAAAGCGGCTCGAGGACGACGATGCGAAAGCGGCTATTGCAATTTCGGTCTCTGAAGTTACTCAAgtgagtcttgattgagtccttgttatgtaaggtttgcccgtggcaatgattttgcaagatgtgatgattgttttgttttgcttgcag-------------
upper sequence: AT5G17440.1 (Arabidopsis thaliana), 5'ss of exon 3
lower sequence: Vv04s0023g00800.t01 (Vitis vinifera), 5'ss of exon 3
TATTGTTGAGTGTGATAGGAAGATTGGTAGGGCTCTTAATCGTCTTCAAGAAGAGGATGCCAAAGCTGCCATTGCAATTTCTGTCACAGAATTTACTCAGgtgatgatctaagtttcaattcgttgagtttttttttgtgttttttttttcaactcaagcttttttttcatcatcatatcatcgttgtatcgcag
||||||||||||||||| || |||| ||| |||||||| |||||| | || |||||||| |||||||| || |||||||| ||| | || |||||||||| || | | |||||| | | | ||| | | | | | | | | | | ||| | || | |
CATTGTTGAGTGTGATAGAAAAATTGCTAGAGCTCTTAAGCGTCTTGAGGATGAGGATGCTAAAGCTGCTATAGCAATTTCAGTCTCTGAGGTTACTCAGgtagtggt-tgagtttct-caggctagttctttaaccatatatatctatatattttgatggataatttattgattcctttgcag-----------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|164143898|gb|EL972647.1|EL972647EST: AAGAGGATGCCAAAGCTGCCATTGCAATTTATGTCACAGAATTTACTCAG TCACCTGAAATTCT
genomic: AAGAGGATGCCAAAGCTGCCATTGCAATTTCTGTCACAGAATTTACTCAGgtgatgatct ... tgtatcgcagTCACCTGAAATTCT
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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
TATTGTTGAGTGTGATAGGAAGATTGGTAGGGCTCTTAATCGTCTTCAAGAAGAGGATGCCAAAGCTGCCATTGCAATTTCTGTCACAGAATTTACTCAGgtgatgatctaagtttcaattcgttgagtttttttttgtgttttttttttcaactcaagcttttttttcatcatcatatcatcgttgtatcgcag
- - - - - - - - - - - - - - - - - - - - - - - - - AAGAGG
- - - - - - - - - - - - - - - - - - - - - - - - - AGAGGA
- - - - - - - - - - - - - - - - - - - - - - - - - - GAGGAT
- - - - - - - - - - - - - - - - - - - - - - - - - - AGGATG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGCTG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGCTGC