Sequence
atgc intronic sequence ATGC exonic sequenceAGATCGTGTTTATACAGAGAGAAGGCGTGCTCTTGTGTCGGACAGCCTTGAGCCTCTGATTATCGAGTATGCTGAATTGACAATGGATGACATTCTAGAGgtaagccgtttgatattgatgcccagctaaagaaggtcgttattccccccgagtctttgtataccaacagttgaaactcgttttaccattactag
Basic information
species | Arabidopsis thaliana |
transcript | AT4G01800.1 |
intron # | 16 |
splice site | 5' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: AT4G01800.1 (Arabidopsis thaliana), 5'ss of exon 16
lower sequence: GLYMA02G01060.2 (Glycine max), 5'ss of exon 16
AGATCGTGTTTATACAGAGAGAAGGCGTGCTCTTGTGTCGGACAGCCTTGAGCCTCTGATTATCGAGTATGCTGAATTGACAATGGATGACATTCTAGAGgtaagccgtttgatattgatgcccagctaaagaaggtcgttattccccccgagtctttgtataccaacagttgaaactcgttttaccattactag
|||||| ||||||||||||||||| || || |||| || |||| |||| || |||| |||| || ||||||||||||||||||||||||||| |||| ||||||| | | | | |||| | || | | | | | | | | | || | | || || | |
AGATCGAGTTTATACAGAGAGAAGACGAGCCCTTGAATCTGACAACCTTCAGTCTCTTCTTATTGAATATGCTGAATTGACAATGGATGACATTTTAGAAgtaagccttgctaaaattatgctcctcttt-gtaccttgcttcattgtctaacttaata-atgcaatcatgatgaattag---------------
upper sequence: AT4G01800.1 (Arabidopsis thaliana), 5'ss of exon 16
lower sequence: GLYMA10G27810.1 (Glycine max), 5'ss of exon 17
AGATCGTGTTTATACAGAGAGAAGGCGTGCTCTTGTGTCGGACAGCCTTGAGCCTCTGATTATCGAGTATGCTGAATTGACAATGGATGACATTCTAGAGgtaagccgtttgatattgatgcccagctaaagaaggtcgttattccccccgagtctttgtataccaacagttgaaactcgttttaccattactag
|||||| ||||||||||||||||| || || |||| || |||| ||| || |||| |||| || ||||||||||||||||||||||||||| |||| ||||||| | | | | |||| | || | | | | | | | | | || | | || || | |
AGATCGAGTTTATACAGAGAGAAGACGAGCCCTTGAATCTGACAATCTTCAGTCTCTTCTTATTGAATATGCTGAATTGACAATGGATGACATTTTAGAAgtaagccttgctaaaattatgctcctcttt-gtaccttgcttcattgtctaacttaata-atgcaatcatgatgaattag---------------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|124704548|gb|EH795950.1|EH795950EST: TGACATTCTAGAG GCAAATATTGGCCCAGATACTCCAAAGGAAAGCTGGGATTTTGAAAAGCTC
genomic: TGACATTCTAGAGgtaagccgtt ... ccattactagGCAAATATTGGCCCAGATACTCCAAAGGAAAGCTGGGATTTTGAAAAGCTC
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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
AGATCGTGTTTATACAGAGAGAAGGCGTGCTCTTGTGTCGGACAGCCTTGAGCCTCTGATTATCGAGTATGCTGAATTGACAATGGATGACATTCTAGAGgtaagccgtttgatattgatgcccagctaaagaaggtcgttattccccccgagtctttgtataccaacagttgaaactcgttttaccattactag
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - ATGCTG