Sequence
atgc intronic sequence ATGC exonic sequenceCCTTGGATTGATAGGCGCTGGAACCAACAATGCAAGGATAGCTGGCATGCTTAGAAATCTCTCCAGCTATTATTACAAGGATGCCAGCCTTCTTTTCTGTgtaacgttttatgatttctttttaagttttcatggaataaacacggtttctacttatgataggcttgttctcattgtcttaagtcacaatgcag
Basic information
species | Arabidopsis thaliana |
transcript | AT4G28470.1 |
intron # | 19 |
splice site | 5' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: AT4G28470.1 (Arabidopsis thaliana), 5'ss of exon 19
lower sequence: GLYMA12G13410.1 (Glycine max), 5'ss of exon 21
CCTTGGATTGATAGGCGCTGGAACCAACAATGCAAGGATAGCTGGCATGCTTAGAAATCTCTCCAGCTATTATTACAAGGATGCCAGCCTTCTTTTCTGTgtaa-cgttttatgatttctttttaagttt-tcatggaataaacacggtttctacttatgataggcttgttctcattgtcttaagtcacaatgcag
| | || ||||||| |||||||| |||||||| | || |||||||||||| | ||||| || || ||||| ||||||||| |||||||||| |||||||||| | || | | | ||| | || | | ||| ||| |||| ||||| | | || || || | | | | |
CTTGGGTCTGATAGGTGCTGGAACGAACAATGCTCGAATTGCTGGCATGCTTCGCAATCTTTCTAGTTATTACTACAAGGATACCAGCCTTCTATTCTGTgtaagctttctctaagctctcctcctccttattttctaatttccactgttt----ttatggtca-cccattttcttttaccttatctatag-----
upper sequence: AT4G28470.1 (Arabidopsis thaliana), 5'ss of exon 19
lower sequence: GLYMA06G44340.1 (Glycine max), 5'ss of exon 21
CCTTGGATTGATAGGCGCTGGAACCAACAATGCAAGGATAGCTGGCATGCTTAGAAATCTCTCCAGCTATTATTACAAGGATGCCAGCCTTCTTTTCTGTgtaacgttttatgatttctttttaagttttcatggaataaacacggtttctacttatgataggcttgttct-cattgtcttaagtcacaatgcag
| | || | ||||| |||||||| |||||||| | || |||||||||||| | ||||| || || ||||| ||||||||| |||||||||| ||||| |||| | ||| | |||| || | | ||| ||| |||| || | || || | | || ||| ||
CTTGGGTCTAATAGGTGCTGGAACGAACAATGCTCGAATTGCTGGCATGCTTCGCAATCTTTCAAGTTATTACTACAAGGATACCAGCCTTCTATTCTGCgtaa-gctttctctaagctttcctccttattttctaatttccactgtttttatggtcaccaattttcttttaccttatctatag-----------
upper sequence: AT4G28470.1 (Arabidopsis thaliana), 5'ss of exon 19
lower sequence: Vv12s0028g03130.t01 (Vitis vinifera), 5'ss of exon 21
CCTTGGATTGATAGGCGCTGGAACCAACAATGCAAGGATAGCTGGCATGCTTAGAAATCTCTCCAGCTATTATTACAAGGATGCCAGCCTTCTTTTCTGTgtaacg----ttttatgatttct-----ttttaagttttcatggaataaac--acggtttctacttatgataggcttgttctcattgtcttaagtcacaatgcag
| | || |||||||| || || ||||||||||| | || ||||||||||| | ||||| || |||||||| ||||| || || |||||||| |||||||||| | |||||| | | | | || ||||| | | | | | | || ||||| ||| | | ||||| || |||||
CTTGGGTTTGATAGGTGCGGGTACCAACAATGCTCGAATTGCTGGCATGCTCCGTAATCTTTCAAGCTATTACTACAAAGAAGCTAGCCTTCTGTTCTGTgtaaagattcttttattacctttaaattctctagattttctttcattcatccaatgggttctatatatttt---cacaccaatattgttttggccacttgtgcag
upper sequence: AT4G28470.1 (Arabidopsis thaliana), 5'ss of exon 19
lower sequence: EFJ26022 (Selaginella moellendorffii), 5'ss of exon 20
CCTTGGATTGATAGGCGCTGGAACCAACAATGCAAGGATAGCTGGCATGCTTAGAAATCTCTCCAGCTATTATTACAAGGATGCCAGCCTTCTTTTCTGTgtaacgttttatgatttctttttaagttttcatggaataaacacggtttctacttatgataggcttgttctcattgtcttaagtcacaatgcag
|||||| | || ||||| ||||| |||||||| | || || || |||||| ||| | ||||||||||| ||||||||| |||||||||| ||||| |||| |||| ||| ||| || ||||| | ||| | | | | ||| | | | | ||||||
TCTTGGACTTATTGGCGCCGGAACAAACAATGCGCGTATTGCGGGAATGCTTCGAAGCTTGTCCAGCTATTACTACAAGGATCCCAGCCTTCTGTTCTGCgtaa-gttt---gatctctctt--gtttttctt------------ttttttcttcgttttcatcttagttttgtcaatctctgtcacag-----
upper sequence: AT4G28470.1 (Arabidopsis thaliana), 5'ss of exon 19
lower sequence: EFJ14427 (Selaginella moellendorffii), 5'ss of exon 20
CCTTGGATTGATAGGCGCTGGAACCAACAATGCAAGGATAGCTGGCATGCTTAGAAATCTCTCCAGCTATTATTACAAGGATGCCAGCCTTCTTTTCTGTgtaacgttttatgatttctttttaagttttcatggaataaacacggtttctacttatgataggcttgttctcattgtcttaagtcacaatgcag
|||||| | || ||||||||||| |||||||| | || || || |||||| ||| | ||||||||||| ||||||||| |||||||||| ||||| |||| |||| ||| ||| || ||||| | ||| | | | | ||| | | | | ||||||
TCTTGGACTTATTGGCGCTGGAACAAACAATGCGCGTATTGCGGGAATGCTTCGAAGCTTGTCCAGCTATTACTACAAGGATCCCAGCCTTCTGTTCTGCgtaa-gttt---gatctctctt--gtttttctt------------ttttttcttcgttttcatcttagttttgtcaatctctgtcacag-----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|125043521|gb|EL115790.1|EL115790EST: TTATTACAAGGATGCCAGCCTTCTTTTCTGT GTGCGCATCGCTCAAGGGTTTGTGCATATGGGAAAGGGT
genomic: TTATTACAAGGATGCCAGCCTTCTTTTCTGTgtaacgtttt ... cacaatgcagGTGCGCATCGCTCAAGGGTTTGTGCATATGGGAAAGGGT
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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
CCTTGGATTGATAGGCGCTGGAACCAACAATGCAAGGATAGCTGGCATGCTTAGAAATCTCTCCAGCTATTATTACAAGGATGCCAGCCTTCTTTTCTGTgtaacgttttatgatttctttttaagttttcatggaataaacacggtttctacttatgataggcttgttctcattgtcttaagtcacaatgcag
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGGATG