Sequence
atgc intronic sequence ATGC exonic sequenceTCATCATAAAATTAAGCCAGAACAAGTAGAGCTTGTGCGTCGTGATTACACTGCCAATGAAGGTTGGGAGACGTTCCTTTCTTATGAAGATACACGCCAGgtacaagcttcatatctctaatcctcgcctctcacagcatagtccctaagactttattgaatcaattattatttggtttactaagatcacatacgtcttg...
Basic information
species | Arabidopsis thaliana |
transcript | AT5G50320.1 |
intron # | 7 |
splice site | 5' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: AT5G50320.1 (Arabidopsis thaliana), 5'ss of exon 7
lower sequence: GRMZM2G100872_T01 (Zea mays), 5'ss of exon 7
TCATCATAAAATTAAGCCAGAACAAGTAGAGCTTGTGCGTCGTGATTACACTGCCAATGAAGGTTGGGAGACGTTCCTTTCTTATGAAGATACACGCCAGgtac--aagcttcatatc---tctaatcctcgcctctcacagcatagtccctaagactttattgaatcaattat-tatttggtttactaagatcacatacgtcttg
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CCATCACAAGATCAGGCCTGATGAAGTAGAGCTTGTTAGACGTGACTATGCTGCAAATGAGGGCTGGGAGACGTTCCTCTCTTATGAGGATACACGACAGgtacttaagctgactagccaatttgatcatagggatgacaattctggaatatagtgtcttcctgtataggtggtatttctgatgtgattatagtatacac------
upper sequence: AT5G50320.1 (Arabidopsis thaliana), 5'ss of exon 7
lower sequence: GRMZM2G359735_T01 (Zea mays), 5'ss of exon 7
TCATCATAAAATTAAGCCAGAACAAGTAGAGCTTGTGCGTCGTGATTACACTGCCAATGAAGGTTGGGAGACGTTCCTTTCTTATGAAGATACACGCCAGgtacaagcttcatatctctaatcctcgcctctcacagcatagtccctaagactttattgaatcaattattatttggtttactaagatcacatacgtcttg--
||||| || || |||||| ||||||||||||| | ||||| || |||| ||||| |||||||| || ||||| |||||||| |||||||| ||||||| | | | | | | | | | | ||| || || | | | || | | | | | | || |||
CCATCACAAGATCCGGCCAGATGAAGTAGAGCTTGTCAGACGTGACTATGCTGCAAATGAGGGTTGGGAAACATTCCTCTCTTATGAGGATACACGACAGgtacttatagctggccagccaatatggaaatgaattctggaata--tgatgcttgcctgtataggtgtatttctgatgtgattatagtctactcgccttctc
upper sequence: AT5G50320.1 (Arabidopsis thaliana), 5'ss of exon 7
lower sequence: GLYMA04G36790.1 (Glycine max), 5'ss of exon 7
TCATCATAAAATTAAGCCAGAACAAGTAGAGCTTGTGCGTCGTGATTACACTGCCAATGAAGGTTGGGAGACGTTCCTTTCTTATGAAGATACACGCCAGgtacaagcttcatatctctaatcctcgcctctcacagcatagtccctaagactttattgaatcaattat-tattt-----ggtttactaagatc-acatacgtcttg
||| || |||||||||||||| | || |||||||| || |||||||| | || ||||| |||||||| || || || || |||||||||||||| |||||| || || | ||| | | ||| | || |||| |||| | | | | ||||| | |||| ||| | | || ||| || |
TCACCACCAAATTAAGCCAGAAGAGGTGGAGCTTGTTCGGCGTGATTATATGGCAAATGAGGGTTGGGAAACATTTCTATCATATGAAGATACACGGCAGgta---atttgatctttcttccctttttttct-attgc-tagtgcctattcttatgtctactcaatcacatattctccaaaattttccagcttctacagtagttt--
upper sequence: AT5G50320.1 (Arabidopsis thaliana), 5'ss of exon 7
lower sequence: GLYMA06G18150.1 (Glycine max), 5'ss of exon 7
TCATCATAAAATTAAGCCAGAACAAGTAGAGCTTGTGCGTCGTGATTACACTGCCAATGAAGGTTGGGAGACGTTCCTTTCTTATGAAGATACACGCCAGgtacaagcttcatatctctaatcctcgcctctcacagcatagtccctaagactttattgaatcaattattattt----ggtttactaagatc-acatacgtcttg
||| || |||||||||||||| | || |||||||| || |||||||| | || ||| | |||||||| || || || || |||||||||||||| |||||| || || | ||| | | |||| | |||| |||| | | || | ||||| | | | ||| | | || ||| |||||
TCACCACCAAATTAAGCCAGAAGAGGTGGAGCTTGTTCGGCGTGATTATATGGCAAATCAGGGTTGGGAAACATTTCTATCATATGAAGATACACGGCAGgta---atttgatctttctttcctttttctctattac--tagtgcctattcccatgtttactcaatcacattctccaaaattttccagcttctacagtagtcttt
upper sequence: AT5G50320.1 (Arabidopsis thaliana), 5'ss of exon 7
lower sequence: Vv17s0000g10190.t01 (Vitis vinifera), 5'ss of exon 7
TCATCATAAAATTAAGCCAGAACAAGTAGAGCTTGTGCGTCGTGATTACACTGCCAATGAAGGTTGGGAGACGTTCCTTTCTTATGAAGATACACGCCAGgtacaagcttcatatctctaatcctcgcctctcacagcatagtccctaagactttattgaatcaattattatttggttt----actaagatcacatacgtcttg
|| || |||||||||||||| | || |||||||| || |||||||| || || |||||||||||||| || || ||||| ||||| |||| |||||||||| | | | |||| || | | ||| || | | | || || | | | ||| || | | | ||
CCACCACAAAATTAAGCCAGAGGAGGTTGAGCTTGTTCGCCGTGATTATACAGCAAATGAAGGTTGGGAAACTTTTCTTTCATATGAGGATATACGCCAGgtat---ttgaaaacctcttttctttgtgtctgtatatgtatatatgtgtgtgccaccaattttcttgttgccttgccatgagaaatagaccatttccctttt-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|86084702|gb|DR380461.1|DR380461EST: CTGCCAATGAAGGTTGGGAGACGTTCCTNTCTTATGAAGATACACGCCAG GACATTCTTGTTGGATTGCTACGTTTGCGAAAATGCGGGAAGAATGTAACG
genomic: CTGCCAATGAAGGTTGGGAGACGTTCCTTTCTTATGAAGATACACGCCAGgtacaagctt ... gtggatgcagGACATTCTTGTTGGATTGCTACGTTTGCGAAAATGCGGGAAGAATGTAACG
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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
TCATCATAAAATTAAGCCAGAACAAGTAGAGCTTGTGCGTCGTGATTACACTGCCAATGAAGGTTGGGAGACGTTCCTTTCTTATGAAGATACACGCCAGgtacaagcttcatatctctaatcctcgcctctcacagcatagtccctaagactttattgaatcaattattatttggtttactaagatcacatacgtcttg
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TGAAGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -cgcctctc