Sequence
atgc intronic sequence ATGC exonic sequenceATCCCGCTGCTAGTGCTGATCTAGCTGTAGTTCTAATGCAAGAAGGACTGGCACAAATCTTCCTTGTGGGCAGAAGgtactgattgcagtgacaaggtccattgtctgtgaaatttgttatttcctagtttttgttttgacaacatgtagttctcttatttcacctgggtggttttggctgaacaagtatgaaacgggtcaaagaaattcatccaattctgttcttgtttactttattgtcttgtttggcag
Basic information
species | Arabidopsis thaliana |
transcript | AT4G27650.1 |
intron # | 8 |
splice site | 5' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: AT4G27650.1 (Arabidopsis thaliana), 5'ss of exon 8
lower sequence: LOC_Os04g56480.1 (Oryza sativa), 5'ss of exon 6
ATCCCGCTGCTAGTGCTGATCTAGCTGTAGTTCTAATGCAAGAAGGACTGGCACAAATCTTCCTTGTGGGCAGAAGgta--ctgattgcagtgacaaggt---ccattgtctgtgaaatttgttatttcctagtttttgttttgacaacatg-tagttctcttatttcacctgggtggttttggc--tgaacaagtatga------aacgggtcaaag-----aaattcatccaattctgttcttgtttactttattgtct-tgtttggcag-----
| || |||| |||||||||||||| || |||| |||||||||||||| ||||| | ||||| | || |||||||| ||| | || |||| | |||| | | || | | ||| | || || ||| | |||| || || | | | | | | | || | | || ||| | | |||| | | | || || | | ||| ||||| || || || |
ACCCAACTGCAAGTGCTGATCTAGCAGTTATTCTCATGCAAGAAGGACTTGCACATTTGTTCCTCATTGGTAGAAGgtaagttgagt-cattgactcattgtgccatggcacgaccaagataatttttatt-gtacttcccatgatagcatgctaattgtgatgatgaaagagtattatcttaatagtagccctgtttgattccctattcttttaaaggcttgagttacctcttgcggtgattgtatttgacttattagctatggttatctaaacag
upper sequence: AT4G27650.1 (Arabidopsis thaliana), 5'ss of exon 8
lower sequence: GRMZM2G044011_T01 (Zea mays), 5'ss of exon 7
ATCCCGCTGCTAGTGCTGATCTAGCTGTAGTTCTAATGCAAGAAGGACTGGCACAAATCTTCCTTGTGGGCAGAAGgtactgattgcagtgacaaggtccattgtctgtgaaatttgttatttcctagtttttgttttgacaacatgtagttctcttatttcacctgggtggttttggctgaacaagtatgaaacgggtcaaagaaattcatccaattctgttcttgtttactttattgtcttgtttggcag
|||| ||||| |||||||||||||| || |||| |||||||||||||| || || | ||||| | |||| ||||| | || || || | || |||| | | |||| || | ||| |||| | | || | | | || | ||
ATCCTGCTGCAAGTGCTGATCTAGCAGTTATTCTCATGCAAGAAGGACTTGCCCACCTATTCCTCATTGGCAAAAGgtcagtggaactgttgcaccatc-acaaactaacaaatatttgattt--taatatttattttattgttttattttttatgtctaagatgccaatgttgttaat-------------------------------------------------------------------------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|125196930|gb|EL211884.1|EL211884EST: CTAATGCAAGAAGGACTGGCAC-AATCTTCCTTGTGGGCAGAAG TGTGACAAGTAGCCGTGC
genomic: CTAATGCAAGAAGGACTGGCACAAATCTTCCTTGTGGGCAGAAGgtactgattg ... tgtttggcagTGTGACAAGTAGCCGTGC
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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
ATCCCGCTGCTAGTGCTGATCTAGCTGTAGTTCTAATGCAAGAAGGACTGGCACAAATCTTCCTTGTGGGCAGAAGgtactgattgcagtgacaaggtccattgtctgtgaaatttgttatttcctagtttttgttttgacaacatgtagttctcttatttcacctgggtggttttggctgaacaagtatgaaacgggtcaaagaaattcatccaattctgttcttgtttactttattgtcttgtttggcag
- - - - - - - - - - - - - - - - - - GCAAGA
- - - - - - - - - - - - - - - - - - - AAGAAG