Sequence
atgc intronic sequence ATGC exonic sequenceTTGTGAACTCCTGGGAGTTGACACAGCTGATGTGGACGTAATGATGGGAACCTTCACAAAATCTTTTGGGTCTTGTGGTGGCTATATTGCTGGATCTAAGgttagaaaatgctacatttgtttttatttactgatcttgcaaatctcctgcagtcttgttttggtaaatcaagtttctgaccttttagtttagctcaaaa...
Basic information
species | Arabidopsis thaliana |
transcript | AT5G23670.2 |
intron # | 8 |
splice site | 5' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: AT5G23670.2 (Arabidopsis thaliana), 5'ss of exon 8
lower sequence: LOC_Os11g31640.1 (Oryza sativa), 5'ss of exon 8
TTGTGAACTCCTGGGAGTTGACACAGCTGATGTGGACGTAATGATGGGAACCTTCACAAAATCTTTTGGGTCTTGTGGTGGCTATATTGCTGGATCTAAGgttagaaaatgctacatttgtttttatttactgatcttgcaaatctcctgcagtcttgttttggtaaatcaagtttctgaccttttagtttagctcaaaa
|||||| ||||| || ||||| |||||||||||||| |||||||||| || ||||| || || ||||| || |||||||| |||||||| | ||| ||||| || || ||| | || || ||| |||| | ||| | ||| | | || | || |
TTGTGAGCTCCTTGGGGTTGATCCAGCTGATGTGGACATAATGATGGGCACTTTCACTAAGTCATTTGGATCATGTGGTGGATATATTGCAGCATCGAAGgtacatcttcagagcactt-ctttcagttgcttgaattgaaaatttactga---ttcaccttgct---tgaactctcag---------------------
upper sequence: AT5G23670.2 (Arabidopsis thaliana), 5'ss of exon 8
lower sequence: GRMZM2G142030_T01 (Zea mays), 5'ss of exon 8
TTGTGAACTCCTGGGAGTTGACACAGCTGATGTGGACGTAATGATGGGAACCTTCACAAAATCTTTTGGGTCTTGTGGTGGCTATATTGCTGGATCTAAGgttagaaaatgctacatttgtttttatttactgatcttgcaaatctcctgcagtcttgttttggtaaatcaagtttctgaccttttagtttagctcaaaa
|||||||||||| || |||||| |||||||||| || |||||||||| || ||||| || |||||||| || |||||||| |||||||| | ||| ||||| | | | | || | | | |||| || | | ||| | | | || | | || | | || | || || |
TTGTGAACTCCTTGGGGTTGACCCAGCTGATGTAGATATAATGATGGGTACTTTCACCAAGTCTTTTGGATCATGTGGTGGATATATTGCCGCATCAAAGgt-acatactactgaaagcgatcatatt-acaactgtagca--ctttgtaagaccgagt---agaagattgaccggttccttttactatataactttcag
upper sequence: AT5G23670.2 (Arabidopsis thaliana), 5'ss of exon 8
lower sequence: GLYMA16G26210.1 (Glycine max), 5'ss of exon 8
TTGTGAACTCCTGGGAGTTGACACAGCTGATGTGGACGTAATGATGGGAACCTTCACAAAATCTTTTGGGTCTTGTGGTGGCTATATTGCTGGATCTAAGg-----ttagaaaatgctaca-tttgtttttatttactgatcttgcaaatctcctgcagtcttgttttggtaaatcaagtttctgaccttttagtttagctcaaaa
|||||| ||| |||| || || || |||||||| ||| | ||||||||||| ||||| ||||||||||| || ||||| || || ||||| |||||||||| || ||||| || | | |||| | | | | | | ||| |||| | | | || | ||| | | | |
TTGTGAGCTCTTGGGTGTGGATACTGCTGATGTTGACATTATGATGGGAACATTCACCAAATCTTTTGGATCCTGTGGAGGTTACATTGCGGGATCTAAGgtacttttgtcaaatgttagaatccaaatttagtgtttaactgaggcagtaagttgctaa---agtttgtcagagtaggtgttcagattttctttcttattga---
upper sequence: AT5G23670.2 (Arabidopsis thaliana), 5'ss of exon 8
lower sequence: GLYMA02G07250.1 (Glycine max), 5'ss of exon 8
TTGTGAACTCCTGGGAGTTGACACAGCTGATGTGGACGTAATGATGGGAACCTTCACAAAATCTTTTGGGTCTTGTGGTGGCTATATTGCTGGATCTAAGgttagaaaatgctacatttgttttta--tttactgatcttgcaaatctcc-tgcagtcttgttttggtaaatcaagtttctgaccttttagtttagctcaaaa
|||||| ||| |||| || || || |||||||| ||| | ||||||||||| ||||| ||||||||||| || ||||| || || ||||| ||||| ||||| | | || | | | |||| || | | | || | | || | | | || | ||| | | |
TTGTGAGCTCTTGGGTGTGGATACTGCTGATGTTGACATTATGATGGGAACATTCACCAAATCTTTTGGATCCTGTGGAGGTTACATTGCAGGATCGAAGgtacttttgttaaattttagactccaaatttagtgtttaactgaggcagtatgttgctaaaatctgtcagagtaggtgttcagattttctttcctattga---
upper sequence: AT5G23670.2 (Arabidopsis thaliana), 5'ss of exon 8
lower sequence: Vv17s0000g00500.t01 (Vitis vinifera), 5'ss of exon 9
TTGTGAACTCCTGGGAGTTGACACAGCTGATGTGGACGTAATGATGGGAACCTTCACAAAATCTTTTGGGTCTTGTGGTGGCTATATTGCTGGATCTAAGgttagaaaatgctacatttgtttttatttac---tgatcttgcaaatctcctgcagtcttgttttggtaaatcaagtttctgaccttttagt-ttagctcaaaa
||||| ||| | || || || || ||||||||||| | ||||||||||| ||||||||||||||||| || |||||||| |||||||||||||| |||||| | | || ||| || | ||| ||| ||| || | || | | | || || | |||| | | | | | | | | |||| |
CTGTGAGCTCTTAGGTGTGGATACCGCTGATGTGGATATTATGATGGGAACTTTCACAAAATCTTTTGGATCATGTGGTGGTTATATTGCTGGATCCAAGgtttgtttgttgtatgttttcttggttctaccattgaatttgttaaa-taatg-aatgtgaattcgg-acatcatggggcatatttgtcatcatcaactcata-
upper sequence: AT5G23670.2 (Arabidopsis thaliana), 5'ss of exon 8
lower sequence: Vv14s0068g01300.t01 (Vitis vinifera), 5'ss of exon 8
TTGTGAACTCCTGGGAGTTGACACAGCTGATGTGGACGTAATGATGGGAACCTTCACAAAATCTTTTGGGTCTTGTGGTGGCTATATTGCTGGATCTAAGgttagaaaatgctacatttgtttttatttactgatcttgcaaatctcc-tgcagtcttgttttggtaaat-caagtttctgaccttttagttta-gctcaaaa
|||||| ||| | ||||| || | ||||||||||| | |||||||||| || || ||||| ||||| || ||||||||||||||||| ||||| |||||| | | | || || | | || | | | || | | | | | | || | || | || || | || ||
TTGTGAGCTCTTAGGAGTGGATCCTGCTGATGTGGATATCCTGATGGGAACATTTACTAAATCATTTGGATCATGTGGTGGCTATATTGCAGGATCAAAGgtttgt---ttttgcaactgccctcagttgactgtgatatatatatatatatatatatatatatgtgtgtgtgggtgtgtgtggaaaaaggcaatattctaagMapped 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|86059362|gb|DR355119.1|DR355119EST: CCTTCACAAAATCTTTTGGGTCTTGTGGTGGCTATATTGCTGGATCTAAG GAGCTCATCCAATATTTGAAGCATCAATGCCCAGCTCATCTTTACGCAACA
genomic: CCTTCACAAAATCTTTTGGGTCTTGTGGTGGCTATATTGCTGGATCTAAGgttagaaaat ... acttctatagGAGCTCATCCAATATTTGAAGCATCAATGCCCAGCTCATCTTTACGCAACA
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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
TTGTGAACTCCTGGGAGTTGACACAGCTGATGTGGACGTAATGATGGGAACCTTCACAAAATCTTTTGGGTCTTGTGGTGGCTATATTGCTGGATCTAAGgttagaaaatgctacatttgtttttatttactgatcttgcaaatctcctgcagtcttgttttggtaaatcaagtttctgaccttttagtttagctcaaaa
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TGGTGG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GCTGGA