Sequence
atgc intronic sequence ATGC exonic sequenceTGAGAAGGAGAAATCGAATTCAAATTTACCGGTTTGTGAAAGGGTCTTGGAAGTTACATCAAAGATGGTTCTCATTCCGGCAGGCCCTGCACCAAAACAGgttaatatatactgtgtctgacaaagtaatttagtgatcgactgcaacattgctggatttgtttcctgtaacacaaactcaacgttctttgtgtatatgtttactag
Basic information
species | Arabidopsis thaliana |
transcript | AT3G27325.1 |
intron # | 9 |
splice site | 5' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: AT3G27325.2 (Arabidopsis thaliana), 5'ss of exon 10
lower sequence: LOC_Os09g09360.1 (Oryza sativa), 5'ss of exon 8
TGAGAAGGAGAAATCGAATTCAAAT---TTACCGGTTTGTGAAAGGGTCTTGGAAGTTACATCAAAGATGGTTCTCATTCCGGCAGGCCCTGCACCAAAACAGgttaatatatactgtgtctgacaaagtaatttagtgatcgactgcaacattgctggatttgtttcctgtaacacaaactcaacgttctttgtgtatatgtttactag
| | | ||| | |||| |||| | | ||| | | |||||||||||||||||||||| | || || ||||| ||||||||||||||||| || || | || | | ||| || | | ||| || || | || ||| ||| | || ||| || || || | | |
---GGATCATTCATCTGAACAAAATGGAGTACCTGCCAGCAAAAAGATAGTGGAAGTTACATCAAAGATGGTCCAAATACCTGCAGGACCTGCACCAAAACAGgt----atttataattctgaaccacttgttttcctgcttgctggcattcttactc--tctgattcatgttcactagtttctctgtttcttctgcttaaaataaatg-
upper sequence: AT3G27325.2 (Arabidopsis thaliana), 5'ss of exon 10
lower sequence: GRMZM2G135256_T03 (Zea mays), 5'ss of exon 8
-TGAGAAGGAGAAATCGAATTCAAATTTACCGGTTTGTGAAAGGGTCTTGGAAGTTACATCAAAGATGGTTCTCATTCCGGCAGGCCCTGCACCAAAACAGgt--taatatatactgtgtctgacaaagtaatttagtgatcgactgcaacattgctggatttgtttcctgtaacacaaactcaacgttctttgtgtatatgtttactag
| | || |||| ||| | || ||| | | |||||||||||||||||||||| | ||||| ||||| ||||| ||||||||||| || | | | | ||| |||| | ||| | | |||| || | || | | | | || | | | || | | |||| || || |
ACATCATTCGCCTGTGCAAAATGAATT-ACCTGCCAGTAAAAAGATAGTGGAAGTTACATCAAAGATGGTCCAAATTCCTGCAGGACCTGCTCCAAAACAGgtactattttcaaatttgttagaca--gcaatat--tcatcgccttgtatataggcgtgatgtctggcttccataagcagccagccagccttgtatagctgatg-----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|116456274|gb|EG498866.1|EG498866EST: AAGTTACATCAAAGATGGTTCTCATTCCGGCAGGCCCTGCACCAAAACAG TCGGAACCAGGGAGTCAGACTGAACAAGCTCCCCCATCTGCAGTACTGAAG
genomic: AAGTTACATCAAAGATGGTTCTCATTCCGGCAGGCCCTGCACCAAAACAGgttaatatat ... tgtttactagTCGGAACCAGGGAGTCAGACTGAACAAGCTCCCCCATCTGCAGTACTGAAG
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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
TGAGAAGGAGAAATCGAATTCAAATTTACCGGTTTGTGAAAGGGTCTTGGAAGTTACATCAAAGATGGTTCTCATTCCGGCAGGCCCTGCACCAAAACAGgttaatatatactgtgtctgacaaagtaatttagtgatcgactgcaacattgctggatttgtttcctgtaacacaaactcaacgttctttgtgtatatgtttactag
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGATG