Sequence
atgc intronic sequence ATGC exonic sequenceGACAAAGTCGTTTGGTTGGGATACATATGATTCTTTTATGCAACATGATGTACAAGAACTCAACAGAGTTCTCTGTGAAAAGCTTGAGGACAAGATGAAGgtaaattgtcttcttcatcgtgttctttctttcattctcagttggtgttcatgttttaatttttttcctttttcaag
Basic information
species | Arabidopsis thaliana |
transcript | AT3G11910.1 |
intron # | 6 |
splice site | 5' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: AT3G11910.2 (Arabidopsis thaliana), 5'ss of exon 6
lower sequence: LOC_Os11g36470.1 (Oryza sativa), 5'ss of exon 2
GACAAAGTCGTTTGGTTGGGATACATATGATTCTTTTATGCAACATGATGTACAAGAACTCAACAGAGTTCTCTGTGAAAAGCTTGAGGACAAGATGAAGgtaaattgtcttcttcatcgtgttctttctttcattctcagttggtgttcatgttttaatttttttcctttttcaag
||| ||||| ||||||||||| || |||||||||||||||||||| |||||||||||||||||||| || ||||| || ||||||||||| | ||| | || | | | | | | | | | | | || | | || ||| |||||
------------TGGATGGGACACATATGATTCCTTCATGCAACATGATGTACAAGAGCTCAACAGAGTTCTCTGTGAGAAACTTGAAGATAAGATGAAGGTGACAAATCTGgt--atagagctgtatatatgctgcatgttggctgctattaactttgctttcttcctag------
upper sequence: AT3G11910.2 (Arabidopsis thaliana), 5'ss of exon 6
lower sequence: LOC_Os12g30540.1 (Oryza sativa), 5'ss of exon 6
GACAAAGTCGTTTGGTTGGGATACATATGATTCTTTTATGCAACATGATGTACAAGAACTCAACAGAGTTCTCTGTGAAAAGCTTGAGGACAAGATGAAGgtaaattgtcttcttcatcgtgttctttctttcattctcagttggtgttcatgttttaatttttttcctttttcaag
||| || || ||||| ||||| || ||||||||||| ||||| |||||||| ||||| || ||||||||||| ||||| || ||||| ||||| |||||||| ||| || | ||| ||| | || | | |||| | | ||| | ||
GACCAAATCTTTTGGATGGGACACTTATGATTCTTTCATGCAGCATGATGTTCAAGAGCTTAACAGAGTTCTTTGTGAGAAACTTGAAGACAAAATGAAGgtgaat----------attataacaaacattttattatatgtctacgatt-tgttattaactttgcgttgacccag-
upper sequence: AT3G11910.2 (Arabidopsis thaliana), 5'ss of exon 6
lower sequence: GRMZM2G014805_T01 (Zea mays), 5'ss of exon 6
GACAAAGTCGTTTGGTTGGGATACATATGATTCTTTTATGCAACATGATGTACAAGAACTCAACAGAGTTCTCTGTGAAAAGCTTGAGGACAAGATGAAGgtaaattgtcttcttcatcgtgttctttctttcattctcagttggtgttcatgttttaatttttttcctttttcaag
||| || || ||||| |||||||| ||||||||||| ||||| |||||||| |||||||||||||||||||| ||||| || || || || ||||||||||| ||| | || || | || || | | | || | || || ||| |||| | | ||
GACTAAATCCTTTGGATGGGATACCTATGATTCTTTCATGCAGCATGATGTGCAAGAACTCAACAGAGTTCTTTGTGAGAAACTGGAAGATAAGATGAAGgtgaata----tgacaataatgaattatcatt-acaccaatttactttttat----taacttttctttctacacag-
upper sequence: AT3G11910.2 (Arabidopsis thaliana), 5'ss of exon 6
lower sequence: GRMZM2G071441_T02 (Zea mays), 5'ss of exon 2
GACAAAGTCGTTTGGTTGGGATACATATGATTCTTTTATGCAACATGATGTACAAGAACTCAACAGAGTTCTCTGTGAAAAGCTTGAGGACAAGATGAAGgtaaattgtctt-cttcatcgtgttctttctttcattctcag-ttggtgttcatgttttaatttttttcctttttcaag
|| || || ||||| ||||||| |||||||| || ||||| |||||||| |||||| | || || || || ||||||||||| ||| ||||||||||||| || || | | | | | | | | | || |||| | || |||
CACCAAATCTTTTGGATGGGATAGCTATGATTCGTTCATGCAGCATGATGTTCAAGAATTGAATAGGGTCCTATGTGAAAAGCTGGAGAACAAGATGAAGgtttgccatccaattttgttgaaaaaaaagcctgactgactgactcatattaatgtgcagctattcttctcacag----
upper sequence: AT3G11910.2 (Arabidopsis thaliana), 5'ss of exon 6
lower sequence: Vv08s0032g00600.t01 (Vitis vinifera), 5'ss of exon 6
GACAAAGTCGTTTGGTTGGGATACATATGATTCTTTTATGCAACATGATGTACAAGAACTCAACAGAGTTCTCTGTGAAAAGCTTGAGGACAAGATGAAGgtaaattgtcttcttcatcgtgttctttctttcattctcagttggtgttcatgttttaatttttttcctttttcaag
||| ||||| ||||| ||||| |||||||||||||||||||| |||||||| |||||||| || |||||| | ||||||||||||||||| |||||||||||| || || || | || || ||| | || | | | |||| ||||| | | ||
GACGAAGTCCTTTGGATGGGACACATATGATTCTTTTATGCAGCATGATGTGCAAGAACTTAATAGAGTTTTATGTGAAAAGCTTGAGGATAAGATGAAGgtatatgaggtttaacagc-tgcagctttcagtatttttcactgttctgaagttttttattttatattactggacag
upper sequence: AT3G11910.2 (Arabidopsis thaliana), 5'ss of exon 6
lower sequence: PP1S104_2V6.1 (Physcomitrella patens), 5'ss of exon 6
GACAAAGTCGTTTGGTTGGGATACATATGATTCTTTTATGCAACATGATGTACAAGAACTCAACAGAGTTCTCTGTGAAAAGCTTGAGGACAAGATGAAGgtaaat-tgtcttcttcat-cgtgttctttct---ttc----attctcagttggtgttcatgttttaatttttttcctttttcaag--------------
||| ||||| || || ||||| || ||||| || ||||||||||| ||||| || |||||||| ||||||| ||||| ||||| ||| | || |||||||| | || | ||||| || | |||| || | | || |||| | | |||| | | |
GACGAAGTCTTTCGGATGGGACACTTATGAATCCTTTATGCAACACGATGTTCAGGAACTCAATCGAGTTCTGTGTGAGAAGCTAGAGAATAAAATGAAGgtttgcctctccttttcatatgtactttttccacgctcggaaacccagagctggtcgtgacagtttagacctgatatggcccactgactgaggtgatatt
upper sequence: AT3G11910.2 (Arabidopsis thaliana), 5'ss of exon 6
lower sequence: PP1S42_181V6.1 (Physcomitrella patens), 5'ss of exon 6
GACAAAGTCGTTTGGTTGGGATACATATGATTCTTTTATGCAACATGATGTACAAGAACTCAACAGAGTTCTCTGTGAAAAGCTTGAGGACAAGATGAAGgta----aattgtcttcttcatcgtgttctttctttcattctcagttggtgttcatgt---tttaatttttttcctttttcaag--------------
|| ||||| || || ||||||||||| || || ||||||||||||||||| || || ||||| ||||||||||||||||| | || || || ||||||||| | | | | || |||| | | || | || ||||| |||| |||| ||| || || |
TACTAAGTCTTTCGGATGGGATACATACGACTCCTTTATGCAACATGATGTTCAGGAGCTCAATCGAGTTCTCTGTGAAAAGTTGGAAGATAAAATGAAGgtatggaagaattagttctagtcttgttttcttttctttcctgagttgcgtcgtatgtgatcttaactttgttgtggttctcacctggcctttcgcag
upper sequence: AT3G11910.2 (Arabidopsis thaliana), 5'ss of exon 6
lower sequence: PP1S123_138V6.1 (Physcomitrella patens), 5'ss of exon 6
GACAAAGTCGTTTGGTTGGGATACATATGATTCTTTTATGCAACATGATGTACAAGAACTCAACAGAGTTCTCTGTGAAAAGCTTGAGGACAAGATGAAGgta--aattgtcttct--tcatcgtgttctttc---tttcattctcagttgg--------tgttcat--gttttaatttttttcctttttcaag-
|| || || ||||| ||||| || || || |||||||||||||||||||| ||||| || || | ||||| || || ||||| || ||||| ||||||||| || ||| | ||| | || ||||| || ||| |||| | || ||| || | ||| |
CACTAAATCTTTTGGGTGGGACACCTACGACTCTTTTATGCAACATGATGTTCAAGAGCTGAATCGGGTTCTTTGCGAGAAGCTGGAAGACAAAATGAAGgtatggataaatctctgttagctatgtcttctcggttttcaagagtagctgggtacattatgtttactggtgggaatccttctgtgcttttacag
upper sequence: AT3G11910.2 (Arabidopsis thaliana), 5'ss of exon 6
lower sequence: EFJ18164 (Selaginella moellendorffii), 5'ss of exon 4
GACAAAGTCGTTTGGTTGGGATACATATGATTCTTTTATGCAACATGATGTACAAGAACTCAACAGAGTTCTCTGTGAAAAGCTTGAGGACAAGATGAAGgtaaattgtcttcttcatcgtgttctttctttcattctcagttggtgttcatgttttaatttttttcctttttcaag
||| | ||||||||||||||||| || ||||| |||||||| |||||||| |||||| | ||| | ||| | || || ||||| ||||| ||||||||||| | || | ||| || ||| | ||| ||| | | || | |
GACTAGATCGTTTGGTTGGGATACGTACGATTCGTTTATGCAGCATGATGTGCAAGAATTGAACCGTGTTTTGTGCGAGAAGCTGGAGGATAAGATGAAGgtttactgctattttcttcacgttaaatgttt---tctaacaccaagctc-cactacag------------------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|125191342|gb|EL206296.1|EL206296EST: TACAAGAACTCAACAGAGTTCTCTGTGAAAAGCTTGAGGACAAGATGAAG GGAACTGTTGTGGAGGG
genomic: TACAAGAACTCAACAGAGTTCTCTGTGAAAAGCTTGAGGACAAGATGAAGgtaaattgtc ... ctttttcaagGGAACTGTTGTGGAGGG
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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
GACAAAGTCGTTTGGTTGGGATACATATGATTCTTTTATGCAACATGATGTACAAGAACTCAACAGAGTTCTCTGTGAAAAGCTTGAGGACAAGATGAAGgtaaattgtcttcttcatcgtgttctttctttcattctcagttggtgttcatgttttaatttttttcctttttcaag
- - - - - - - - - - - - - - - - - - - - - - - - - - AAGAAC
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGATG