Sequence
atgc intronic sequence ATGC exonic sequenceAGTTGGGCTGCCCCTGGTTTTCAAGTCAAGTTTTGATAAAGCTAACAGAACTTCTTCAAAGTCATTTCGTGGTCCTGGCATGGCCGAGGGTCTGAAGgtatcttcccctgtatacctttaatcactctttttatgccttgggatgtctaaatatagatgaattggatgttaggactgtggatatgagaaccttcaca...
Basic information
species | Arabidopsis thaliana |
transcript | AT1G79500.2 |
intron # | 4 |
splice site | 5' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: AT1G79500.2 (Arabidopsis thaliana), 5'ss of exon 4
lower sequence: GLYMA18G48370.1 (Glycine max), 5'ss of exon 3
AGTTGGGCTGCCCCTGGTTTTCAAGTCAAGTTTTGATAAAGCTAACAGAACTTCTTCAAAGTCATTTCGTGGTCCTGGCATGGCCGAGGGTCTGAAGgtatcttcccctgtatacctttaatcactctttttatgccttgggatgtctaaatatagatgaattggatgttaggactgtg----gatatgagaaccttcaca--
||||| | || |||||||||||||||| ||||| ||||||||| |||| || ||||| ||||||||||| || || ||||| ||||| ||||||| | ||| |||| | | | | | ||||| ||| | || || || | | | |||| | ||| | |||||| | | |
-GTTGGAATACCATTGGTTTTCAAGTCAAGCTTTGACAAAGCTAACCGAACATCATCAAAATCATTTCGTGGCCCGGGGATGGCTGAGGGATTGAAGGttcatatttctgc-taccat--gttgcgataatatctccttgtgatttgtatctagagg-gttctaggtgttgtaattgttcaataacatgaga-tgatgagact
upper sequence: AT1G79500.2 (Arabidopsis thaliana), 5'ss of exon 4
lower sequence: GLYMA09G38010.1 (Glycine max), 5'ss of exon 4
AGTTGGGCTGCCCCTGGTTTTCAAGTCAAGTTTTGATAAAGCTAACAGAACTTCTTCAAAGTCATTTCGTGGTCCTGGCATGGCCGAGGGTCTGAAGgtatcttcccctgtatacctttaatcactctttttatgccttgggatgtctaaatatagatgaat-tggatgttaggactgtg-gatatga-gaaccttcaca--
|||||| | || |||||||||||||||| ||||| ||||||||| |||| || ||||| ||||||||||| || || |||| ||||| ||||||| | ||| ||| || | | | | ||||| ||| | || | | || || | | | |||| | ||| ||| || || || |
AGTTGGAATACCGTTGGTTTTCAAGTCAAGCTTTGACAAAGCTAACCGAACATCATCAAAATCATTTCGTGGCCCGGGGATGGTTGAGGGATTGAAGgttcatatttctgc-tacttt--gttgcgataatatctccttgtgatttgta--tcttgaggattctaggtgttgtaattgttcaataagatgagactgtattag
upper sequence: AT1G79500.2 (Arabidopsis thaliana), 5'ss of exon 4
lower sequence: Vv19s0085g00720.t01 (Vitis vinifera), 5'ss of exon 3
AGTTGGGCTGCCCCTGGTTTTCAAGTCAAGTTTTGATAAAGCTAACAGAACTTCTTCAAAGTCATTTCGTGGTCCTGGCATGGCCGAGGGTCTGAAGgtatcttcccctgtatacctttaatcactctttttatgccttgggatgtctaaatatagatgaattggatgttaggactgtggatatgagaaccttcaca-
| ||||| || |||||||||||||| || ||||||||||| || |||| || ||||| |||||||| |||||||||||| || || |||||||||| ||| | | ||| |||| | ||| | | | || || | ||| || || ||| || ||
ATTTGGGTTGAAGCTGGTTTTCAAGTCGAGCTTTGATAAAGCCAATCGAACCTCCTCAAAATCATTTCGGGGTCCTGGCATGATTGAAGGCCTGAAGgtattggttgttgttaatttgatgtcatgaatttttggttttgttaaatttggatgtattaatcctaaatga-agtgctacattgccttgaattttgtcaaMapped 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|152035142|gb|BP846049.2|BP846049EST: GAACTTCTTCAAAGTCATTTCGTGGTCCTGGCATGGCCGAGGGTCTGAAG ATTCTTGAGAAGGTGAAGGTAGCATATGATCTACCAATAGTAACTGATGTT
genomic: GAACTTCTTCAAAGTCATTTCGTGGTCCTGGCATGGCCGAGGGTCTGAAGgtatcttccc ... tccaacgcagATTCTTGAGAAGGTGAAGGTAGCATATGATCTACCAATAGTAACTGATGTT
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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
AGTTGGGCTGCCCCTGGTTTTCAAGTCAAGTTTTGATAAAGCTAACAGAACTTCTTCAAAGTCATTTCGTGGTCCTGGCATGGCCGAGGGTCTGAAGgtatcttcccctgtatacctttaatcactctttttatgccttgggatgtctaaatatagatgaattggatgttaggactgtggatatgagaaccttcaca
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - CTGAAG