Sequence
atgc intronic sequence ATGC exonic sequenceGCACTCAATACGTAGGAAATGTGGCGGTGCCACTACTCTGTATAAGTGCTCTAGATGATCCATTATGCACAAAGGAAGCTATTCCCTGGGACGAATGCAGgtaagacgctatctatctctttttaaatcttaaatcctgttacagcgattaacatgaagtttctattgaaaag
Basic information
species | Arabidopsis thaliana |
transcript | AT1G34340.1 |
intron # | 11 |
splice site | 5' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: AT1G34340.1 (Arabidopsis thaliana), 5'ss of exon 11
lower sequence: LOC_Os05g35730.1 (Oryza sativa), 5'ss of exon 11
GCACTCAATACGTAGGAAATGTGGCGGTGCCACTACTCTGTATAAGTGCTCTAGATGATCCATTATGCACAAAGGAAGCTATTCCCTGGGACGAATGCAGgtaagacgctatctatctctttttaaatcttaaatcct--gttacagcgattaac-atgaagtttctattgaaaag-----
| | | ||| | | |||||| | ||||| || || ||||| |||||||| ||||| ||| | ||||||| ||| || ||||||||||||||||||||||||| || | ||| | | ||| | | ||| | | || |||| || ||||
GTGCAAATTACATTAGTAATGTGTCAGTGCCCCTGCTTTGTATCAGTGCTCTTGATGACCCACTTTGCACAAGGGAGGCCATTCCCTGGGACGAATGCAGgtaagct--tacttttctttcaaaagatcaccatcctaaagttttattgtgtattgatgaggtccacattgtgtgattcag
upper sequence: AT1G34340.1 (Arabidopsis thaliana), 5'ss of exon 11
lower sequence: GLYMA10G35910.1 (Glycine max), 5'ss of exon 10
GCACTCAATACGTAGGAAATGTGGCGGTGCCACTACTCTGTATAAGTGCTCTAGATGATCCATTATGCACAAAGGAAGCTATTCCCTGGGACGAATGCAGgtaagacgc-----tatctatctct--ttttaa--atcttaaatcctgttacagcgatt-aacatgaagtttctattgaaaag---------
| || || || | ||| || | ||||| |||||||| |||||||| ||||||||| | || || | |||||| ||||||||||| ||||||||||| || | | | || | || ||| || || | | || || || || | ||| || || | || |
GTTCTACTTATGTGCAATCTGTTTCGATTCCACTTCTCTGTATTAGTGCTCTGGATGATCCAGTCTGTACCAGGGAAGCCATTCCCTGGGATGAATGCAGgtacactgcttgattgtttttccttggttctaattattttgatttctctttcattacttcagcatcaatttaatgttctattattttgatag
upper sequence: AT1G34340.1 (Arabidopsis thaliana), 5'ss of exon 11
lower sequence: GLYMA20G31690.1 (Glycine max), 5'ss of exon 10
GCACTCAATACGTAGGAAATGTGGCGGTGCCACTACTCTGTATAAGTGCTCTAGATGATCCATTATGCACAAAGGAAGCTATTCCCTGGGACGAATGCAGgtaagacgct--atctatctcttt----ttaa--atcttaaatcctgttacagcgatt-aacatgaagtttctattgaaaag---------
| | || || | ||| || | || || |||||||| |||||||| |||||||| | || || | |||||| ||||||||||| ||||||||||| | ||| || | || || ||| || || | | || || || || ||||| || || | || |
GTTCCATTTATGTGCAATCTGTTTCGATTCCGCTTCTCTGTATTAGTGCTCTGGATGATCCTGTCTGTACCAGGGAAGCCATTCCCTGGGATGAATGCAGgtacgctgcttcattgttttccttggttctaattattttgatttctcttgcattacttcaacatcaatttaatgttctactatttttatagMapped 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|116475910|gb|EG518502.1|EG518502EST: CTAGATGATCCATTATGCACAAAGGAAGCTATTCCCTGGGACGAATGCAG GGCCAACAAAAACATTGTCTTGGCTACAACAAATCACGGGGGACATCTAGC
genomic: CTAGATGATCCATTATGCACAAAGGAAGCTATTCCCTGGGACGAATGCAGgtaagacgct ... tattgaaaagGGCCAACAAAAACATTGTCTTGGCTACAACAAATCACGGGGGACATCTAGC
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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
GCACTCAATACGTAGGAAATGTGGCGGTGCCACTACTCTGTATAAGTGCTCTAGATGATCCATTATGCACAAAGGAAGCTATTCCCTGGGACGAATGCAGgtaagacgctatctatctctttttaaatcttaaatcctgttacagcgattaacatgaagtttctattgaaaag
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGGAA