Sequence
atgc intronic sequence ATGC exonic sequenceAATTGATGCTGTTGGATCCACAAGAAAACAATGGGAAGGGCATACAAAGAAGACATTGCATCAACTACTTGTTGAAATGGATGGTTTTGAGCAGAATGAGgtacttgttgattaggagtagtgtatcttgtgattacttccgctagtttgcaggaatataatagtactttgctttctattttggttatgcag
Basic information
species | Arabidopsis thaliana |
transcript | AT5G53170.1 |
intron # | 10 |
splice site | 5' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: AT5G53170.1 (Arabidopsis thaliana), 5'ss of exon 10
lower sequence: LOC_Os01g43150.2 (Oryza sativa), 5'ss of exon 2
AATTGATGCTGTTGGATCCACAAGAAAACAATGGGAAGGGCATACAAAGAAGACATTGCATCAACTACTTGTTGAAATGGATGGTTTTGAGCAGAATGAGgtacttgttgattaggagtagtgtatcttgtgattacttccgctagtttgcaggaatataatagtactttgctttctattttggttatgcag
||| |||||||| || || || |||||||| |||||||| || |||||||| |||||||||||||| ||||| || |||||||||||||| || ||||||||| | | ||| | | | | | |||| | || | | || |||||||| | || |||||
AATAGATGCTGTGGGTTCAACTAGAAAACAGTGGGAAGGACACACAAAGAAAACATTGCATCAACTTCTTGTCGAGATGGATGGTTTTGAACAAAATGAGgtaacctt---------atcacatatttaacagtccatcacacag------aggactttatgtaaattgtgttttctatt--gattttgcag
upper sequence: AT5G53170.1 (Arabidopsis thaliana), 5'ss of exon 10
lower sequence: GRMZM2G004040_T01 (Zea mays), 5'ss of exon 10
AATTGATGCTGTTGGATCCACAAGAAAACAATGGGAAGGGCATACAAAGAAGACATTGCATCAACTACTTGTTGAAATGGATGGTTTTGAGCAGAATGAGgtacttgttgattaggagtagtgtatcttgtgattacttccgctagtttg--caggaatataatagtactttgctttctatt-----ttggttatgcag
||| |||||||| ||||| || || ||||| ||||||||||| ||||||||||||||||||||||| |||||||| |||||||| ||||| || ||||||| | | |||| |||| |||||| | | | | | ||| | | || | |||||| | ||| || | |||
AATAGATGCTGTGGGATCAACTAGGAAACAGTGGGAAGGGCACACAAAGAAGACATTGCATCAACTTCTTGTTGAGATGGATGGGTTTGAACAAAATGAGgcaat-----------gctagtctatcatgtgatcgaatagaccaatgtactcagaactttatctgactcttgcttccaattgatcttttatctcacag
upper sequence: AT5G53170.1 (Arabidopsis thaliana), 5'ss of exon 10
lower sequence: GRMZM2G156069_T01 (Zea mays), 5'ss of exon 10
AATTGATGCTGTTGGATCCACAAGAAAACAATGGGAAGGGCATACAAAGAAGACATTGCATCAACTACTTGTTGAAATGGATGGTTTTGAGCAGAATGAGgta--cttgttgattaggagtagtgtatcttgtgattacttccgctagtttgcaggaatataatagtactttgctttctattttggttatgcag
||| |||||||| || || || |||||||| ||||||||||| ||||||||||| ||||||||||| |||||||| ||||| || ||||| || ||||||||| || || || | | || || | || | | | | ||| | || | | | ||| || ||| | | |||
AATAGATGCTGTGGGTTCAACTAGAAAACAGTGGGAAGGGCACACAAAGAAGACGTTGCATCAACTTCTTGTTGAGATGGACGGGTTTGAACAAAATGAGgtatgctagtctatcac-attatcaaatagagcaat-atattcagaactttacctgactct-----tgcttccaattgatcttttatcttacag
upper sequence: AT5G53170.1 (Arabidopsis thaliana), 5'ss of exon 10
lower sequence: GLYMA14G29810.1 (Glycine max), 5'ss of exon 2
AATTGATGCTGTTGGATCCACAAGAAAACAATGGGAAGGGCATACAAAGAAGACATTGCATCAACTACTTGTTGAAATGGATGGTTTTGAGCAGAATGAGgtacttgttgattaggagtagtgtatcttgtgattacttccgctagtttgcaggaatataatagtactttgctttctattttggttatgcag
|||||||||||||||||| ||||||||||||||||| || || |||||||||||||||||||| |||||||||||||||||||| |||||||||||||||||| | | || ||| | || ||| |||| || |||| || ||| | | | || ||| | || | |
AATTGATGCTGTTGGATCAACAAGAAAACAATGGGAGGGCCACACAAAGAAGACATTGCATCAGCTACTTGTTGAAATGGATGGGTTTGAGCAGAATGAGgtatcttt-------gaacagtttggagtgcaattcgttcctctggttt-tagaaat----tgattcattattttatcttgtag--------
upper sequence: AT5G53170.1 (Arabidopsis thaliana), 5'ss of exon 10
lower sequence: GLYMA13G08160.1 (Glycine max), 5'ss of exon 10
AATTGATGCTGTTGGATCCACAAGAAAACAATGGGAAGGGCATACAAAGAAGACATTGCATCAACTACTTGTTGAAATGGATGGTTTTGAGCAGAATGAGgtacttgttgattaggagtagtgtatcttgtgattacttccgctagtttgcaggaatataatagtactttgctttctattttggttatgcag
|||||||||||||||||| ||||||||||||||||| || || |||||||||||||||||||| |||||||||||||||||||| |||||||||||||||||| | | || || | || ||| |||| || |||| | | | || ||| |||||
AATTGATGCTGTTGGATCAACAAGAAAACAATGGGAGGGCCACACAAAGAAGACATTGCATCAGCTACTTGTTGAAATGGATGGGTTTGAGCAGAATGAGgtatcttt-------gaacagcttggagtgcaatttgttcctctggttttagaaattgattcattattttatcttctag-------------
upper sequence: AT5G53170.1 (Arabidopsis thaliana), 5'ss of exon 10
lower sequence: GLYMA06G13140.1 (Glycine max), 5'ss of exon 10
AATTGATGCTGTTGGATCCACAAGAAAACAATGGGAAGGGCATACAAAGAAGACATTGCATCAACTACTTGTTGAAATGGATGGTTTTGAGCAGAATGAGgtacttgttgattaggagtagtgtatcttgtgattacttccgctagtttgcaggaatataatagtactttgctttctattttggttatgcag
||| ||||||||||| || || || |||||||||||||| |||||||||||||||||||| ||||||||||||||||||||||| |||||||||||||| ||| | || | | | | || |||||| | || |||||| | | || | || | || || | || ||
AATAGATGCTGTTGGTTCAACTAGGAAACAATGGGAAGGTCATACAAAGAAGACATTGCACCAACTACTTGTTGAAATGGATGGATTTGAGCAGAATGAAgta--tatt--tcaagttttaaacat-ttgtgagtgttta-attagtttctctctgtttcctaat---ttattcaacatctttatcttgtag
upper sequence: AT5G53170.1 (Arabidopsis thaliana), 5'ss of exon 10
lower sequence: Vv16s0050g02630.t01 (Vitis vinifera), 5'ss of exon 10
AATTGATGCTGTTGGATCCACAAGAAAACAATGGGAAGGGCATACAAAGAAGACATTGCATCAACTACTTGTTGAAATGGATGGTTTTGAGCAGAATGAGgtacttgttgattaggagtagtgtatcttgtgattacttccgctagtttgcaggaatataatagtactttgctttctattttggttatgcag
||| |||||||||||||| ||| |||| ||||||||||| |||||||| || |||||||| ||||| ||||||||||||||||||||||| |||||||||||| || | | | |||| | |||| || || ||| | | ||| || ||| |||
AATAGATGCTGTTGGATCTACACGAAAGCAATGGGAAGGCCATACAAAAAAAACATTGCACCAACTGCTTGTTGAAATGGATGGTTTTGAACAGAATGAGgtaacatatggacaa-acttgtgttattagtgaatatttttctgcatttttttaacttggataatatttttcttgtag--------------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|125064739|gb|EL132257.1|EL132257EST: AGACATTGCATCAACTACTTGTTGAAATGGATGGTTTTGAGCAGAATGAG GGAATAATAGTTATGGCTGCAACAAA
genomic: AGACATTGCATCAACTACTTGTTGAAATGGATGGTTTTGAGCAGAATGAGgtacttgttg ... ggttatgcagGGAATAATAGTTATGGCTGCAACAAA
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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
AATTGATGCTGTTGGATCCACAAGAAAACAATGGGAAGGGCATACAAAGAAGACATTGCATCAACTACTTGTTGAAATGGATGGTTTTGAGCAGAATGAGgtacttgttgattaggagtagtgtatcttgtgattacttccgctagtttgcaggaatataatagtactttgctttctattttggttatgcag
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GAGCAG