Sequence
atgc intronic sequence ATGC exonic sequencegtaaaccatattctcaaatttaagtcaatgtgcctgcagcaaccttcagatagcaatcttgtttcaatccccgttttgcattctagGTTTGTGTCTGAGTGGAAAAAGTATCTGGAATATGAGGCTGATGTAATGAAAGATGTTCCGGGATGGAAAGTTGGCGAGAATGTGTACAATTCTGGTCGC
Basic information
species | Arabidopsis thaliana |
transcript | AT1G04630.1 |
intron # | 2 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: AT1G04630.1 (Arabidopsis thaliana), 3'ss of exon 2
lower sequence: GRMZM2G070716_T02 (Zea mays), 3'ss of exon 2
---gtaaaccatattctcaaatttaagtcaatgtgcctgca-gcaaccttcagatagcaatcttgtttcaatccccgttttgcat-tctagGTTTGTGTCTGAGTGGAAAAAGTATCTGGAATATGAGGCTGATGTAATGAAAGATGTTCCGGGATGGAAAGTTGGCGAGAATGTGTACAATTCTGGTCGC
|| | ||| | | | | ||| || | | || | | ||| || || || | || | ||| ||||| |||||||| |||||||| || | ||||| | |||||||||||||| || ||||| |||||||||| |||||||||||| ||
gtactatccaatactgtttgccatta-tcattggtgttatatattctctggcgttcacaaaacacttaaaaggtccatggcgctcatgtagATTTGTCAAAGAGTGGAAGAAGTATCTTGAGGAGGAGGCGAGGATTATGAAAGATGTTCCAGGGTGGAAGGTTGGCGAGAGTGTGTACAATTCCGGGAAAMapped 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|86079106|gb|DR374863.1|DR374863EST: GCTGCTCGTAGAACAATACTTCCCATTCTTCAAGCAGAAGAAGATGAAAG GTTTGTGTCTGAGTGGAAAAAGTATCTGGAATATGAGGCTGATGTAATGAA
genomic: GCTGCTCGTAGAACAATACTTCCCATTCTTCAAGCAGAAGAAGATGAAAGgtaaaccata ... tgcattctagGTTTGTGTCTGAGTGGAAAAAGTATCTGGAATATGAGGCTGATGTAATGAA
EST:
gi|124781021|gb|EH870964.1|EH870964EST: CTGCTCGTAGAACAATACTTCCCATTCTTCAAGCAGAAGAAGATAGAAAG GTTTGTGTCTGAGTGGAAAAAGTATCT
genomic: CTGCTCGTAGAACAATACTTCCCATTCTTCAAGCAGAAGAAGAT-GAAAGgtaaaccata ... tgcattctagGTTTGTGTCTGAGTGGAAAAAGTATCT
atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.gcctgcagcaaccttcagatagcaatcttgtttcaatccccgttttgcattctagGTTTGTGTCTGAGTGGAAAAAGTATCTGGAATATGAGGCTGATGTAATGAAAGATGTTCCGGGATGGAAAGTTGGCGAGAATGTGTACAATTCTGGTCGC
tccccgtttt CT-rich tract
tttcaat TA-rich tract
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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gtaaaccatattctcaaatttaagtcaatgtgcctgcagcaaccttcagatagcaatcttgtttcaatccccgttttgcattctagGTTTGTGTCTGAGTGGAAAAAGTATCTGGAATATGAGGCTGATGTAATGAAAGATGTTCCGGGATGGAAAGTTGGCGAGAATGTGTACAATTCTGGTCGC
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGATG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GATGGA