Sequence
atgc intronic sequence ATGC exonic sequenceGATGTGCTGTTTTTACAGCATATGGTGCTATGGCTCATGCTGCTGAGATCCGTCCTGGAGATTCTATTGCAGTTATTGGAATTGGTGGTGTGGGCTCCAGgtatgttaaatgtgtggcattttcttttctttaccggatttgggttttattgcttcttgtatgaccataaccatctttgagttgttgcttcag
Basic information
species | Arabidopsis thaliana |
transcript | AT5G63620.2 |
intron # | 5 |
splice site | 5' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: AT5G63620.2 (Arabidopsis thaliana), 5'ss of exon 5
lower sequence: GLYMA08G00740.1 (Glycine max), 5'ss of exon 5
GATGTGCTGTTTTTACAGCATATGGTGCTATGGCTCATGCTGCTGAGATCCGTCCTGGAGATTCTATTGCAGTTATTGGAATTGGTGGTGTGGGCTCCAGgtatgt--taaatgtgtggcattttcttttctttaccggatttgggt--------tttattgcttcttgta--tgacc-ataaccatctttgagttgttgcttcag
|||||||||||||||| || || || |||||||||||||| ||| | | |||||||| |||||| |||| |||||||||| ||| ||||| || || ||||| | | ||| | ||| | || || | ||| || | |||||| | ||||| || | |||| ||||| ||||| |
GATGTGCTGTTTTTACTGCTTACGGCGCTATGGCTCATGCAGCTCAAGTGCGTCCTGGTGATTCTGTTGCTGTTATTGGAACTGGAGGTGTTGGTTCTAGgtaaataatcaatttttggaagatttttatgcttataaatcttcaccaagctgtgtctattgccttttgtagttgtcttataattatctt-gagttagtaa-----
upper sequence: AT5G63620.2 (Arabidopsis thaliana), 5'ss of exon 5
lower sequence: GLYMA05G33140.1 (Glycine max), 5'ss of exon 5
GATGTGCTGTTTTTACAGCATATGGTGCTATGGCTCATGCTGCTGAGATCCGTCCTGGAGATTCTATTGCAGTTATTGGAATTGGTGGTGTGGGCTCCAGgtatgt----taaatgtgtggcattttcttttcttta---ccggatttgggt---tttattgcttcttgta-tgaccataaccatctttgagttgttgcttcag
|||||||||||||||| || || || |||||||||||||| ||| | | |||||||| |||||| |||| |||||||||| ||| ||||| || || ||||| | || | || ||||| | ||| | | | | | |||||| | ||||| | | || ||||| ||||| |
GATGTGCTGTTTTTACTGCTTACGGCGCTATGGCTCATGCAGCTCAAGTGCGTCCTGGTGATTCTGTTGCTGTTATTGGAACTGGAGGTGTTGGTTCTAGgtaaataatctatttttggaagatttttatgctgttaaatcttcacctagctgtgcctattgccttttgtagttgtcttatttatctt-gagttaataaga---
upper sequence: AT5G63620.2 (Arabidopsis thaliana), 5'ss of exon 5
lower sequence: Vv07s0031g03150.t01 (Vitis vinifera), 5'ss of exon 5
GATGTGCTGTTTTTACAGCATATGGTGCTATGGCTCATGCTGCTGAGATCCGTCCTGGAGATTCTATTGCAGTTATTGGAATTGGTGGTGTGGGCTCCAGgta---tgttaaatgtgtgg--cattttcttttctttaccggatttgggttt--tattgcttcttgtatgaccataaccatctttgagtt--gttgcttcag
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GATGTGCAGTCTTTACTGCTTATGGTGCTATGGCGCATGCAGCTGAGGTGCGTCCTGGCAATTCTGTTGCTGTAATTGGTATTGGGGGTGTTGGCTCAAGgtaaactcttaattttgttggtcatatggtttggttgaccattcatagatttgttagtgaacctgttgtttacaaaatcaattgaaactttaatagttgt--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|164087198|gb|ES016049.1|ES016049EST: CGTCCTGGAGATTCTATTGCAGTTATTGGAATTGGTGGTGTTGGCTCCAG TTGTTTGCAGATCGCAAGGGCTTTTGGAGCCTCGGATA
genomic: CGTCCTGGAGATTCTATTGCAGTTATTGGAATTGGTGGTGTGGGCTCCAGgtatgttaaa ... gttgcttcagTTGTTTGCAGATCGCAAGGGCTTTTGGAGCCTCGGATA
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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
GATGTGCTGTTTTTACAGCATATGGTGCTATGGCTCATGCTGCTGAGATCCGTCCTGGAGATTCTATTGCAGTTATTGGAATTGGTGGTGTGGGCTCCAGgtatgttaaatgtgtggcattttcttttctttaccggatttgggttttattgcttcttgtatgaccataaccatctttgagttgttgcttcag
- - - - - - - - - - - - - - - - - - - - - - - - - - - TGGAGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - GGAGAT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TGGTGG