Sequence
atgc intronic sequence ATGC exonic sequenceGTTGTGATCTGGTGGGCTGGTCTAATGAGAGGTGCTGTATCTATGGCTCTTGCCTACAATAAGgtaaattgaaagtttaatggatagtaaacagcgacatggtgattagtaaaaatctagcagataatttaacttctttatttctctgtgctctctaatgcag
Basic information
species | Arabidopsis thaliana |
transcript | AT3G05030.2 |
intron # | 9 |
splice site | 5' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: AT3G05030.2 (Arabidopsis thaliana), 5'ss of exon 9
lower sequence: LOC_Os07g47100.3 (Oryza sativa), 5'ss of exon 13
GTTGTGATCTGGTGGGCTGGTCTAATGAGAGGTGCTGTATCTATGGCTCTTGCCTACAATAAGgtaaat-------tgaaagtttaatggatagta--aacagcg-acatggtgattagtaaaaatctagcagataatttaacttct-----ttatttctctgtgctctctaatgcag-------------------------
||||| || ||||||||||| || |||||||| ||||| || || |||||||| ||||||||||| | | || ||| || || | | | | | | || | | |||| || ||||| | ||| ||| || ||| | ||
GTTGTAATATGGTGGGCTGGGCTGATGAGAGGAGCTGTGTCGATTGCTCTTGCTTACAATAAGgtcagtccgtcagtgcaagactattgcttcacaccatctgtatatctgtatttctcttctcatcttgccattaattagtcccaggagaagtatgtcttagtttcttctccttaagcttaactgtctcgttgcaattgcag
upper sequence: AT3G05030.2 (Arabidopsis thaliana), 5'ss of exon 9
lower sequence: GRMZM2G037342_T02 (Zea mays), 5'ss of exon 13
GTTGTGATCTGGTGGGCTGGTCTAATGAGAGGTGCTGTATCTATGGCTCTTGCCTACAATAAGgtaaattgaaagtttaatggatagtaaacagcgacatggtgattagtaaaaatctagcagataatttaacttctttatttc----tctgtgctctctaatgcag
||| | | |||||||| ||||| |||||||||||||| ||||| || | || ||||||||||||||| |||| | || | | | |||| | | | || | ||| | | ||| | | | | | | ||
GTTATTGTTTGGTGGGCGGGTCTCATGAGAGGTGCTGTGTCTATTGCGTTGGCTTACAATAAGgtaaatcttgtgtttggtctatc-tggtttgagctttggtctggaattgtgttactgcttttg-tttcctctatccattccaaaacataggatattttttgt--
upper sequence: AT3G05030.2 (Arabidopsis thaliana), 5'ss of exon 9
lower sequence: PP1S207_23V6.1 (Physcomitrella patens), 5'ss of exon 13
GTTGTGATCTGGTGGGCTGGTCTAATGAGAGGTGCTGTATCTATGGCTCTTGCCTACAATAAGgtaaattgaaagtttaatggatagtaaacagcgacatggtgattagtaaaaatctagcagataatttaacttctttatttctctgtg-ctctctaatgcag
||||||||||||||||||| | ||||||||||| |||||||| || | || | ||| ||||| ||| || | | || || || || | || || ||||| | | | | ||| || | |
ATTGTGATCTGGTGGGCTGGATTGATGAGAGGTGCAGTATCTATTGCCTTAGCATTTAATCAGgtatggatttcgttaaacttttggcaataagtagtgcagtacata-tgaactattattctcgaatttcatgctgtagtagattggtgactgaagggagtaaMapped 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|116454479|gb|EG497071.1|EG497071EST: GGGCTGGTCTAATGAGAGGTGCTGTATCTATGGCTCTTGCCTACAATAAG TTTACAAGATCAGGGCACACAGAATTGCGCGGGAATGCAATCATGATTACC
genomic: GGGCTGGTCTAATGAGAGGTGCTGTATCTATGGCTCTTGCCTACAATAAGgtaaattgaa ... tctaatgcagTTTACAAGATCAGGGCACACAGAATTGCGCGGGAATGCAATCATGATTACC
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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
GTTGTGATCTGGTGGGCTGGTCTAATGAGAGGTGCTGTATCTATGGCTCTTGCCTACAATAAGgtaaattgaaagtttaatggatagtaaacagcgacatggtgattagtaaaaatctagcagataatttaacttctttatttctctgtgctctctaatgcag
- - - - - - - - - - - - - GAGAGG