Sequence
atgc intronic sequence ATGC exonic sequenceTGATCGTCGGTTAGCTGATCATTTTGGAGGGAAGCTTCACTTGGGTTACATGCTGATCCGCGACAAATTGGCAGAGCTTCAGgtaatatacagtagaatctttctagtgattttccttttctctcttgatatagactgtatagttatattctctctgtcttcttcag
Basic information
species | Arabidopsis thaliana |
transcript | AT5G17440.1 |
intron # | 10 |
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 10
lower sequence: LOC_Os02g39300.1 (Oryza sativa), 5'ss of exon 10
TGATCGTCGGTTAGCTGATCATTTTGGAGGGAAGCTTCACTTGGGTTACATGCTGATCCGCGACAAATTGGCAGAGCTTCAGgtaatatacagtagaatctttctagt--gattttccttttctctcttgatatagactgtatagttatattctctctgtct--tcttcag-----------
||| || || || || ||||||||||||||||| ||||| ||||||| |||||||| || || || || | || || ||||| | | ||| | ||| | || | | || || | | ||| | || | | | | ||
TGACCGGCGTTTGGCAGATCATTTTGGAGGGAAACTTCATATGGGTTATATGCTGATACGTGAGAAGTTATCCGAACTGCAGgtgaggtttttcgaaattgtgctattttgaatggagctaagtccggtggggttgcatgttagacaagggcctttttatgggaacagtaggattgtcctac
upper sequence: AT5G17440.1 (Arabidopsis thaliana), 5'ss of exon 10
lower sequence: Vv04s0023g00800.t01 (Vitis vinifera), 5'ss of exon 10
TGATCGTCGGTTAGCTGATCATTTTGGAGGGAAGCTTCACTTGGGTTACATGCTGATCCGCGACAAATTGGCAGAGCTTCAGgtaatatacagtagaatctt--tctagtgattttccttttctctcttgatatagactgtatagttatattctct-ctgtcttcttcag--------------
||| ||||| ||||| |||||||||||||| |||||||| ||||| || |||| ||||| || || |||||||||||||||||| || | || || | || | | ||| | | ||| | | | || ||| |||| | || | | |
TGACCGTCGCTTAGCAGATCATTTTGGAGGAAAGCTTCATTTGGGCTATATGCAAATCCGTGAAAAGCTGGCAGAGCTTCAGgtaagatgaattattttcgtgatcatataggagctcatttatgttttggt-tgtcccgtg-ggttctatttcatattggcattagtacaaaaaggataattt
upper sequence: AT5G17440.1 (Arabidopsis thaliana), 5'ss of exon 10
lower sequence: PP1S88_36V6.2 (Physcomitrella patens), 5'ss of exon 10
TGATCGTCGGTTAGCTGATCATTTTGGAGGGAAGCTTCACTTGGGTTACATGCTGATCCGCGACAAATTGGCAGAGCTTCAGgta-atatacagtagaatctttctagtgattttccttttctctcttgatatagactgtatagttatattctctctgtcttcttcag------------------
||| ||||| | || || ||||||||||||||||| || ||||||||||||| ||| || || || | | || | | ||| | | || | | | |||| ||| || || ||| | ||| || | | | |||| |
TGACCGTCGCCTGGCGGACCATTTTGGAGGGAAGCTACATTTGGGTTACATGCAGATTCGGGAGAAGCTTGTTGACTTGCGAgtacgtcttcaattca--ccttctgaga--tttatttggaaagaatggtattgtgtgtgtattgtttcttctagtgtcacagattggaacatcagtgcggtgcaMapped 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|86084088|gb|DR379847.1|DR379847EST: AGCTTCACTTGGGTTACATGCTGATCCGCGMCAAATTGGCAGAGCTTCAG GAGGAGAAGMACAAAGTTCACAAGGAACGGGTCGAAGAAAGGAG
genomic: AGCTTCACTTGGGTTACATGCTGATCCGCGACAAATTGGCAGAGCTTCAGgtaatataca ... tcttcttcagGAGGAGAAGAACAAAGTTCACAAGGAACGGGTCGAAGAAAGGAG
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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
TGATCGTCGGTTAGCTGATCATTTTGGAGGGAAGCTTCACTTGGGTTACATGCTGATCCGCGACAAATTGGCAGAGCTTCAGgtaatatacagtagaatctttctagtgattttccttttctctcttgatatagactgtatagttatattctctctgtcttcttcag
- - - - - - - - - - - - - - - - - - - - - - - - ATGCTG
- - - - - - - - - - - - - - - - - - - - - - - - - GCTGAT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGAGCT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GAGCTT