Sequence
atgc intronic sequence ATGC exonic sequenceAGGAATGGCCTATGGAAAGTTTATTGGACTTGCTTTGGCTCAGAACCCTGATTTCAATCTCTCTATCTTGGAAGTGGCATCTCCACAAGCTTATGGTCTGgtactgttcttatgtggtcaatgtttcaaaattgtcttaatttcagactttcttgattggttacctatcaatactttgaacagaatattttttcgggttaactgagaatggatgctagtttttttgtagcttcattgccaatgatcctgtttgtctcattgtttaacag
Basic information
species | Arabidopsis thaliana |
transcript | AT4G35440.2 |
intron # | 3 |
splice site | 5' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: AT4G35440.1 (Arabidopsis thaliana), 5'ss of exon 3
lower sequence: GLYMA14G00270.1 (Glycine max), 5'ss of exon 4
AGGAATGGCCTATGGAAAGTTTATTGGACTTGCTTTGGCTCAG---AACCCTGATTTCAATCTCTCTATCTTGGAAGTGGCATCTCCACAAGCTTATGGTCTGgtactgttcttatgtggtcaatgtttcaaaattgtcttaatttcagactttcttgattggttacctatcaatactttgaacagaatattttttcgggttaactgagaatggatgctagtttttttgtagcttcattgccaatgatcctgtttgtctcattgtttaacag
||||| |||||||| || ||| | | ||| | ||| || || || | || |||||| | |||||||||||||| |||||||||||||| |||||||| ||||| || | ||| || || | ||| || || ||| | | || ||| | | || || | | | | || || ||
---GATGGCTTATGGAAAATTAATTAGTTTGGCTGTTGCTGAGTCTAATCCCACAATTAACCTCTCTGTGTTGGAAGTGGCATCACCACAAGCTTATGGCCTGgtactattctt--------------tccattttggctatat---ggtttttaccattttgtattttatgattggcatggtcagtttttcttctctga--gatgggggatcaattatatc--------------------------------------------------
upper sequence: AT4G35440.1 (Arabidopsis thaliana), 5'ss of exon 3
lower sequence: Vv03s0038g04260.t01 (Vitis vinifera), 5'ss of exon 4
AGGAATGGCCTATGGAAAGTTTATTGGACTTGCTTTGGCTCAG---AACCCTGATTTCAATCTCTCTATCTTGGAAGTGGCATCTCCACAAGCTTATGGTCTGgtactgttcttatgtggtcaatgtttca-----aaattgtcttaatttcagactttcttgattggttacctatcaatactttgaacagaatattttttcgggttaactgagaatggatgctagtttttttgtagcttcattgccaatgatcctgtttgtctcattgtttaacag
|||||| |||||||| |||||| |||| | | ||| || || || ||||||| || ||||||||||| || |||||||| ||||| |||||| |||||| ||| | | | ||| | | | | ||| ||| ||| |||| | || | | || | || | || | ||| |
---AATGGCTTATGGAAAATTTATTACTTTTGCCATTTCCCAGTCCAATCCAATGTTTCATCTCTCCATTTTGGAAGTGGCGTCACCACAAGCATATGGCCTGgtattgttct-atgatactattatatcagcaagataatattttattttaagaatttcatatctgccacaccaccagaaaatttga-agggtgtttggatgca------------------------------------------------------------------------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|125152277|gb|EL183998.1|EL183998EST: ATTTCAATCTCTCTATCTTGGAAGTGGCATCTCCACAAGCTTATGGTCTG GTTGGAATGGCTGCTACACTTG
genomic: ATTTCAATCTCTCTATCTTGGAAGTGGCATCTCCACAAGCTTATGGTCTGgtactgttct ... tgtttaacagGTTGGAATGGCTGCTACACTTG
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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
AGGAATGGCCTATGGAAAGTTTATTGGACTTGCTTTGGCTCAGAACCCTGATTTCAATCTCTCTATCTTGGAAGTGGCATCTCCACAAGCTTATGGTCTGgtactgttcttatgtggtcaatgtttcaaaattgtcttaatttcagactttcttgattggttacctatcaatactttgaacagaatattttttcgggttaactgagaatggatgctagtttttttgtagcttcattgccaatgatcctgtttgtctcattgtttaacag
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TGGAAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - CAAGCT