Sequence
atgc intronic sequence ATGC exonic sequenceTGGAAGGGGATCCGGGGTTGGATGGTGGAAAAAATTCTGCACCTTTCACCGACATTCTGAACATGGTTTGCAGCTGTGTTGATAATTCATCACCAGACAGgtatgtaccttcgtgtttcaaaatcttcttgagattggttataccaattcttaaagctgaaagttttgtgcag
Basic information
species | Arabidopsis thaliana |
transcript | AT3G43300.1 |
intron # | 4 |
splice site | 5' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: AT3G43300.1 (Arabidopsis thaliana), 5'ss of exon 4
lower sequence: GLYMA13G17610.1 (Glycine max), 5'ss of exon 4
TGGAAGGGGATCCGGGGTTGGATGGTGGAAAAAATTCTGCACCTTTCACCGACATTCTGAACATGGTTTGCAGCTGTGTTGATAATTCATCACCAGACAGgtatgta--ccttcgtgt---ttcaaaatcttcttgagattggttataccaattct--taaagctgaaagttttgtgcag-----------
|||| || ||||| ||||| || ||||| |||||| || || || |||||||| |||||||||||||| |||||||| ||||||||||| |||||||||| | || || || || | | | | |||| | || || | || |||| |
TGGAGGGAGATCCTGGGTTAGAGGGTGGTAAAAATGTCCCATTGTTTACAGACATTCTAAACATGGTTTGCAGTTGTGTTGACAATTCATCACCTGACAGgtatgcaaaccactatgcatatttaatgcttatgcattactagatatatatttcctgttatacctattcatttttaaaaaccaacatgcag
upper sequence: AT3G43300.1 (Arabidopsis thaliana), 5'ss of exon 4
lower sequence: GLYMA17G04890.1 (Glycine max), 5'ss of exon 4
TGGAAGGGGATCCGGGGTTGGATGGTGGAAAAAATTCTGCACCTTTCACCGACATTCTGAACATGGTTTGCAGCTGTGTTGATAATTCATCACCAGACAGgtatgtac----cttcgtgtttcaaaatcttc-----ttgagattggttataccaattcttaaagctgaaagttt--tgtgcag
|||| || ||||| ||||| || ||||| |||||| | || || || |||||||| |||||||||||||| |||||||| ||||||||||| |||||||||| | || || || | || ||| | | ||| | | || | || | | ||| |||||
TGGAGGGAGATCCTGGGTTAGAGGGTGGTAAAAATGTTCCATTGTTTACAGACATTCTAAACATGGTTTGCAGTTGTGTTGACAATTCATCACCTGACAGgtatgcaaaccactacgggtatttaatgcttacgagatatatatttcctgttataactattcatttttaaaaaccaacatgcag
upper sequence: AT3G43300.1 (Arabidopsis thaliana), 5'ss of exon 4
lower sequence: Vv11s0016g00170.t01 (Vitis vinifera), 5'ss of exon 5
TGGAAGGGGATCCGGGGTTGGATGGTGGAAAAAATTCTGCACCTTTCACCGACATTCTGAACATGGTTTGCAGCTGTGTTGATAATTCATCACCAGACAGgtatgtaccttcgtgtttcaa-aatcttcttgagattggtta--taccaattcttaaagct----gaaagttttgtgcag
| || || ||||| || | |||||||| | |||| | | | || || ||||||||||| ||||||||||| |||||||||||||| ||| | ||||||||||| ||| | |||| |||||| | | | || | ||| | | | || ||| | |||||||
TAGAGGGTGATCCTGGTCTAGATGGTGGTACAAATGCACCGCTGTTTACAGACATTCTGAATATGGTTTGCAGTTGTGTTGATAATTCGTCATCTGACAGgtatgttgctttctacatcaacaatctttcctaagatagctagcttgtaatgcctgtaacttttgaaaaatggtgtgcagMapped 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|124816406|gb|EH901272.1|EH901272EST: GTTTGCAGCTGTGTTGATAATTCATCACCAGACAG CACTGTACTCCAAGTACTGAAGGTTCTTCTTACAGCTGTTGCTTCAGGAAA
genomic: GTTTGCAGCTGTGTTGATAATTCATCACCAGACAGgtatgtacct ... ttttgtgcagCACTGTACTCCAAGTACTGAAGGTTCTTCTTACAGCTGTTGCTTCAGGAAA
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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
TGGAAGGGGATCCGGGGTTGGATGGTGGAAAAAATTCTGCACCTTTCACCGACATTCTGAACATGGTTTGCAGCTGTGTTGATAATTCATCACCAGACAGgtatgtaccttcgtgtttcaaaatcttcttgagattggttataccaattcttaaagctgaaagttttgtgcag
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GCAGCT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - CAGCTG