Sequence
atgc intronic sequence ATGC exonic sequenceGAATATGATCTCTCAAGGAGCTTATTTATATGTTTGTGGTGACGCCAAAGGCATGGCAAGAGATGTTCACAGATCTCTCCACACAATAGCTCAAGAACAGgtatgtcttgttgagatcaatctagcattatcattgtccgtatcacaaaccgactctaatgagtttatttctgtctgtcttgttttcag
Basic information
species | Arabidopsis thaliana |
transcript | AT4G30210.1 |
intron # | 16 |
splice site | 5' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: AT4G30210.1 (Arabidopsis thaliana), 5'ss of exon 16
lower sequence: LOC_Os08g14570.1 (Oryza sativa), 5'ss of exon 16
GAATATGATCTCTCAAGGAGCTTATTTATATGTTTGTGGTGACGCCAAAGGCATGGCAAGAGATGTTCACAGATCTCTCCACACAATAGCTCAAGAACAGgtatgtcttgttgagatcaatcta-gcattatcattgtccgtatcacaaaccgactctaatgagtttatttctgtc-tgtcttgttttcag---------------
| | |||||||| || || | ||| | || || |||||||| |||||||||||||| |||||||| || ||| ||||||||| || | || |||||||||| | || | || | | | | | || | | || | | | | ||| |||||||| | | ||| | | |
GGACATGATCTCCCAGGGTGGTTACATTTACGTCTGTGGTGATGCCAAAGGCATGGCCAGAGATGTACATAGAGTTCTCCACACCATTGTACAGGAACAGgtat-ttttctcacagccattacacacttgctgataaaatttgtttcattctgtcc---gtcagtatatttctggcataaattgatgacggttttttgcgttacag
upper sequence: AT4G30210.1 (Arabidopsis thaliana), 5'ss of exon 16
lower sequence: GRMZM2G144407_T01 (Zea mays), 5'ss of exon 17
GAATATGATCTCTCAAGGAGCTTATTTATATGTTTGTGGTGACGCCAAAGGCATGGCAAGAGATGTTCACAGATCTCTCCACACAATAGCTCAAGAACAGgtat--gtctt--gttgagatcaa--tctagcattatcattgtccgtatcacaaaccgactctaatgagtttatttctgtctgtcttgttttcag----------------------------
| | |||||||| ||||| ||||| | ||||| |||||||| |||||||||||||| |||||||| || ||| ||||||||| || | ||| || |||||| |||| | || | || | || | | | | | | | | ||| || | | || | | ||| | | ||
GGACATGATCTCCCAAGGTGCTTACATCTATGTCTGTGGTGATGCCAAAGGCATGGCCAGAGATGTACATAGAGTTCTCCACACCATTGTTCAGGAGCAGgtactgatcttaggcctagttgaaactttaaaaaaaatact-tgcacactataaatatgcttctttctctgcatctgttgttgtttctcatgcaattgtcgacaatttttttttggcgaacag
upper sequence: AT4G30210.1 (Arabidopsis thaliana), 5'ss of exon 16
lower sequence: AC217947.4_FGT002 (Zea mays), 5'ss of exon 16
GAATATGATCTCTCAAGGAGCTTATTTATATGTTTGTGGTGACGCCAAAGGCATGGCAAGAGATGTTCACAGATCTCTCCACACAATAGCTCAAGAACAGgtat--gtctt--gttgagatcaatctagcattatcattgtccgtatcacaaaccgactctaatgagtttattt-ctgtctgtcttgttttcag-------------------
| | |||||||| ||||| ||||| | ||||| ||||||||||||||||||||||| ||||| || || ||| |||||| || || | ||| || |||||| || | | || |||| || | | | || | | | || || | | | |||| | || || ||
GGACATGATCTCCCAAGGTGCTTACATCTATGTCTGTGGTGACGCCAAAGGCATGGCCAGAGACGTACATAGAGTTCTCCATACCATTGTTCAGGAGCAGgtactgatcctaggcctagttcaaacttaaaaaaaatacttagatactatagatgtgcttctatctctgcctctgctgtttctcatgcatttgtcgatatttttggcaatcag
upper sequence: AT4G30210.1 (Arabidopsis thaliana), 5'ss of exon 16
lower sequence: GLYMA13G00990.1 (Glycine max), 5'ss of exon 17
GAATATGATCTCTCAAGGAGCTTATTTATATGTTTGTGGTGACGCCAAAGGCATGGCAAGAGATGTTCACAGATCTCTCCACACAATAGCTCAAGAACAGgtatgtcttgttgag--atcaa-tctagcattatcattgtccg-tatcacaaaccgactctaatgagtttatttctgtctgtcttgttttcag-------
|| ||||| |||||||||||||| | ||||| |||||||| ||||| |||||||| || ||||| ||| | | || |||||||| ||||| ||||||| | || || | || || ||| | ||| | | | | || | || | | | | | | || | | |
GAGCATGATATCTCAAGGAGCTTACATTTATGTGTGTGGTGATGCCAAGGGCATGGCCAGGGATGTACACCGTGCCCTGCACACAATTTTGCAAGAGCAGgtatatatttttaaataataaaatctcgaattgccttaaattgatggcatgggtgagggtgattgcgaatttggcaccttatattagtggctgctactac
upper sequence: AT4G30210.1 (Arabidopsis thaliana), 5'ss of exon 16
lower sequence: Vv11s0052g00880.t01 (Vitis vinifera), 5'ss of exon 17
GAATATGATCTCTCAAGGAGCTTATTTATATGTTTGTGGTGACGCCAAAGGCATGGCAAGAGATGTTCACAGATCTCTCCACACAATAGCTCAAGAACAGgtatgtcttgttgagatcaatctagcattatc-attgtccgtatcacaa-----accgactctaatgagtttatttctgtctgt-cttgttttcag-----
|||| | || ||||| |||| || | ||||| |||||||| ||||||||||||||||| ||||| |||||| |||| || || || ||||| |||||| || | | | || || | ||| | | | || | ||| || | |||| | || | || ||
GAATGTAATTTCTCAGGGAGGCTACATTTATGTCTGTGGTGATGCCAAAGGCATGGCAAGGGATGTCCACAGAACTCTTCATACCATCTTGCAAGAGCAGgtacgt-tcatacaaataaaatcaacatccctgaatcgacaaatggctgcctctacctaccttgatgaaatcatcatacctaatgtttaccaccacccattMapped 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|124984592|gb|EL057239.1|EL057239EST: GCATGGCAAGAGATGTTCACAGATCTCTCCACACAATAGCTCAAGAACAG GG-TCAATGGATTCAACTAAAG
genomic: GCATGGCAAGAGATGTTCACAGATCTCTCCACACAATAGCTCAAGAACAGgtatgtcttg ... ttgttttcagGGGTCAATGGATTCAACTAAAG
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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
GAATATGATCTCTCAAGGAGCTTATTTATATGTTTGTGGTGACGCCAAAGGCATGGCAAGAGATGTTCACAGATCTCTCCACACAATAGCTCAAGAACAGgtatgtcttgttgagatcaatctagcattatcattgtccgtatcacaaaccgactctaatgagtttatttctgtctgtcttgttttcag
- - - - - - - - - - - - - - - - - - - - - - - - - - - GCAAGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGAGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - GAGATG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGCTCA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGAAC