Sequence
atgc intronic sequence ATGC exonic sequenceGGTCGTGGCTTATCTTTCCCGGGTACTTGAGTCTGCTTTCACTGCCTTGGAAGGTCTTAATAAGCAAGCCTTCCTGACTGAACTGgtatgatttctttctcaccacagatttcgttaagccttttggttactatttgatctgttcgaagtatttattcgccctggcctttgctttttattgcttt...
Basic information
species | Arabidopsis thaliana |
transcript | AT5G12370.1 |
intron # | 21 |
splice site | 5' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: AT5G12370.3 (Arabidopsis thaliana), 5'ss of exon 21
lower sequence: GLYMA16G01660.1 (Glycine max), 5'ss of exon 20
GGTCGTGGCTTATCTTTCCCGGGTACTTGAGTCTGCTTTCACTGCCTTGGAAGGTCTTAATAAGCAAGCCTTCCTGACTGAACTGgtatgatttc---tttctcaccacagatttcgttaagccttttggttactatttgatctgttcgaagtatttattcgccctggcctttgctttttattgcttt--
|| || ||||||||||| || || || |||||||| || ||||| || ||||| ||||| || ||||| ||||||||||| ||||||||| | || || | || | | || | ||| | |||| |||| | | | | | | | | || || || |
AGTTGTTGCTTATCTTTCTCGTGTGCTGGAGTCTGCATTTACTGCTTTAGAAGGCCTTAACAAACAAGCATTCCTGACTGAGTTGgtatgatattgtattgctgatcattggatatattga---tttaatgtcttattggatcaaat--agttggctgcttgtacagaatcaagcagattggtggatgat
upper sequence: AT5G12370.3 (Arabidopsis thaliana), 5'ss of exon 21
lower sequence: GLYMA07G05160.1 (Glycine max), 5'ss of exon 20
GGTCGTGGCTTATCTTTCCCGGGTACTTGAGTCTGCTTTCACTGCCTTGGAAGGTCTTAATAAGCAAGCCTTCCTGACTGAACTGgtatgatttctttctcaccacagatttcgttaagccttttggtt-actatttgatctgttcgaagtatt---tattcgccctggcctttgctttttattgcttt--
|| || ||||||||||| || || || |||||||| || ||||| || ||||| ||||| || ||||| ||||||||||| ||||||||| | | | | ||| | || | | ||| || | | | | || | || || || | | | | | || | | |
AGTTGTTGCTTATCTTTCTCGTGTGCTGGAGTCTGCATTTACTGCTTTAGAAGGCCTTAACAAACAAGCATTCCTGACTGAGTTGgtatgatattgt----atagctgat--cattgaatatattgatttaatgtcttatttaatcaaatagttggctgcttgtacagaatcaagcagataggcggatgat
upper sequence: AT5G12370.3 (Arabidopsis thaliana), 5'ss of exon 21
lower sequence: Vv15s0046g02200.t01 (Vitis vinifera), 5'ss of exon 20
GGTCGTGGCTTATCTTTCCCGGGTACTTGAGTCTGCTTTCACTGCCTTGGAAGGTCTTAATAAGCAAGCCTTCCTGACTGAACTGgtatgatttctttctcaccacagatttcgttaagccttttggttactatttgatctgttcgaagtatttattcgccctggcctttgctttttattgcttt--
|| ||||| |||||||| || || |||||| |||| ||||||||| | |||||||||||||||||||| |||||||||||| ||||||||| || | || | | ||| || | | | | | |||| | | | ||| || | | | ||| | | |
AGTTGTGGCATATCTTTCTCGTGTGCTTGAGGCTGCATTCACTGCCCTAGAAGGTCTTAATAAGCAAGCTTTCCTGACTGAATTGgtatgatatcgtgatctctat-gatatcttcggatataata-tggttccttgactgctactgacccaaaatttcttttgacttcttttttctggtttcatgtMapped 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|164228020|gb|ES060469.1|ES060469EST: CTTTCACTGCCTTGGAAGGTCTTAATAAGCAAGCCTTCCTGACTGAACTG GGAAATAGGTTAGAAAAACTGCTACTAACACACTGGCAGAAGTTCACTTT
genomic: CTTTCACTGCCTTGGAAGGTCTTAATAAGCAAGCCTTCCTGACTGAACTGgtatgatttc ... tcattttcagGGAAATAGGTTAGAAAAACTGCTACTAACACACTGGCAGAAGTTCACTTT
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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
GGTCGTGGCTTATCTTTCCCGGGTACTTGAGTCTGCTTTCACTGCCTTGGAAGGTCTTAATAAGCAAGCCTTCCTGACTGAACTGgtatgatttctttctcaccacagatttcgttaagccttttggttactatttgatctgttcgaagtatttattcgccctggcctttgctttttattgcttt
- - - - - - - - - - - - - - - - - - - - - - - TGGAAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGCAA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGCAAG