Sequence
atgc intronic sequence ATGC exonic sequenceTACTGGAAATACTCCTCTGGTGTTGATATGGAAGGATGAGAGCTGTAGTCAGTATGTCATCGATACTGATAACAATGGAGAAGTTCCAAACCAACAACATgtaagtggattttgacagacttttacagctcatggtttttcatacaaagtgtttagtattacactcccatttacaaagtcttaacatatattctctctgtatcttgtaaaaacag
Basic information
species | Arabidopsis thaliana |
transcript | AT4G24880.1 |
intron # | 4 |
splice site | 5' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: AT4G24880.1 (Arabidopsis thaliana), 5'ss of exon 4
lower sequence: GRMZM2G002361_T01 (Zea mays), 5'ss of exon 4
TACTGGAAATACTCCTCTGGTGTTGATATGGAAGGATGAGAGCTGTAGTCAGTATGTCATCGATACTGATAACAATGGAGAAGTTCCAAACCAACAACATgtaagtggat---------tttga--cagacttttac-agctcatggt-----ttttcata-caaagtgtttagtattacactccca-----tttacaaagtcttaaca--tatattctctctgtatcttgtaaaaacag---------------------
|||||| || ||||| | | ||||||| ||||||| |||||| |||||||| |||||||| | ||||| || ||| | |||| | ||||||||||| || | ||||| || | | | | | | ||| | || || || |||| | || | | | | | || | ||| | || | | || || ||| || || |
AGCTGGAATCACACCTCTTGCCCTAGTATGGAAAGATGAGACCTGTAGCCAGTATGTTATCGATACGAACAACAAGGGTGAAATACCAAGCGAACAACATgtatgtctgtgtcctgttgtttgagtcatattatggccaacacattttgaccattctcgtaacaaaaagaaaagaaaaagatacataaagtattgttatggtcctcaccactgtttttacttaatattttttattgcctttgtttcttcatgtgctatcag
upper sequence: AT4G24880.1 (Arabidopsis thaliana), 5'ss of exon 4
lower sequence: Vv17s0000g01420.t01 (Vitis vinifera), 5'ss of exon 4
TACTGGAAATACTCCTCTGGTGTTGATATGGAAGGATGAGAGCTGTAGTCAGTATGTCATCGATACTGATAACAATGGAGAAGTTCCAAACCAACAACATgtaagtggattttgacagacttttacagctcatggtttttcatacaaagtgtttagta--ttacactcccatttac---aaagtcttaacatatattctctctgtatcttgtaaaaacag
|||||||| || || ||| ||| | ||||||||||||| ||||||||||||||| |||||||| |||| || ||| | ||||||| |||||||| ||| | ||| |||| || | | | | | | |||| | || | ||| || | ||| | ||||| | ||| | ||
AACTGGAAACACACCACTGACATTGGTTTGGAAGGATGAGAACTGTAGTCAGTATGTTATCGATACAGATAGTAAAGGACAGGTTCCAAGTCAACAACAGgtattgtggcattgcataacttgcttgcct----atctcaagaaaagaatttttattgccttgtaagccccttcaattagaagcttaaacatgaagtct-tttgc---------------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|86076910|gb|DR372667.1|DR372667EST: AGTATGTCATCGATACTGATAACAATGGAGAAGTTCCAAACCAACAACAT ATTGTCTTGGAGTTGCAAGAAGAAGGAAAACTTGTAACATCTGATGATCCA
genomic: AGTATGTCATCGATACTGATAACAATGGAGAAGTTCCAAACCAACAACATgtaagtggat ... gtaaaaacagATTGTCTTGGAGTTGCAAGAAGAAGGAAAACTTGTAACATCTGATGATCCA
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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
TACTGGAAATACTCCTCTGGTGTTGATATGGAAGGATGAGAGCTGTAGTCAGTATGTCATCGATACTGATAACAATGGAGAAGTTCCAAACCAACAACATgtaagtggattttgacagacttttacagctcatggtttttcatacaaagtgtttagtattacactcccatttacaaagtcttaacatatattctctctgtatcttgtaaaaacag
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TGGAGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GGAGAA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGAAGT