Sequence
atgc intronic sequence ATGC exonic sequenceAATCAAGAAAATGAAGGTCAAGAATTGCTATTTCCCTCTGTTTGTATCTCCTGGTGTCTTAGAAAAGGAGAAGGACCACATCGAGGGATTCGCCCCTGAGgtttgtatatcttgtagatcttgtttgtgaagaaaaaggccttcttataacagatctcattgttttgtttag
Basic information
species | Arabidopsis thaliana |
transcript | AT3G62120.2 |
intron # | 4 |
splice site | 5' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: AT3G62120.1 (Arabidopsis thaliana), 5'ss of exon 4
lower sequence: GLYMA19G40930.1 (Glycine max), 5'ss of exon 5
AATCAAGAAAATGAAGGTCAAGAATTGCTATTTCCCTCTGTTTGTATCTCCTGGTGTCTTAGAAAAGGAGAAGGACCACATCGAGGGATTCGCCCCTGAGgtttgtatatcttgtagatcttgtttgtgaagaaaaa--ggccttcttataacagatctcattgttttgtttag-----------------------------
||| ||||||||||| ||||||| ||||| ||||| |||||||||||||||| || | ||||||||||||||||| | ||||| || || |||||||| | | |||| |||| | | | | || | | | |||| | | | |||| ||||
AATAAAGAAAATGAAAATCAAGAACTGCTACTTCCCATTGTTTGTATCTCCTGGAGTTCTGCAAAAGGAGAAGGACCACGTTGAGGGTTTTGCTCCTGAGgtgagagt---ttgtgaatctgttgggccatgcaatgttgactgttcaataagttagtttaagtttttttttaactaaggaatattctcccggaatatcctat
upper sequence: AT3G62120.1 (Arabidopsis thaliana), 5'ss of exon 4
lower sequence: GLYMA03G38340.1 (Glycine max), 5'ss of exon 5
AATCAAGAAAATGAAGGTCAAGAATTGCTATTTCCCTCTGTTTGTATCTCCTGGTGTCTTAGAAAAGGAGAAGGACCACATCGAGGGATTCGCCCCTGAG-
||| ||||||||||| ||||||| ||||| ||||| ||||||| |||||||| || | ||||||||||||||||| | ||||| || || |||||| |||||| |||| || | ||| ||| || | || | | | || ||| ||||
AATAAAGAAAATGAAAATCAAGAACTGCTACTTCCCATTGTTTGTGTCTCCTGGAGTTCTGCAAAAGGAGAAGGACCACGTTGAGGGTTTTGCTCCTGAGgtgagagtttgtgaatctgtcaggccatgtaatgttgactgttcaataagttagtttaagtttttttttttttttaacttaggaatattctcccggaata
upper sequence: AT3G62120.1 (Arabidopsis thaliana), 5'ss of exon 4
lower sequence: Vv07s0005g02620.t01 (Vitis vinifera), 5'ss of exon 5
AATCAAGAAAATGAAGGTCAAGAATTGCTATTTCCCTCTGTTTGTATCTCCTGGTGTCTTAGAAAAGGAGAAGGACCACATCGAGGGATTCGCCCCTGAGgtttgtatatcttgtagatcttgtttgtgaaga--aaaaggccttcttataacagatctcattgttttgtttag---------------------------
|| ||||| ||||| ||||||||||||| |||||||| |||||||| |||||||| ||| ||||||||||||| ||||| ||||| ||||| || ||||| | || | | | | | | || | || ||| | |||| | || || | || |||
GATTAAGAAGATGAAAATCAAGAATTGCTACTTCCCTCTCTTTGTATCACCTGGTGTTTTACAAAAGGAGAAGGATCACATTGAGGGTTTCGCTCCAGAGgtaag-atttttaatgcttttcatatgataggattaaagtgaattctgtttactaattaaggtattgattttgaattcaacagaatgtgcctcttgaaattMapped 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|124724484|gb|EH815886.1|EH815886EST: GGATTCGCCCCTGAG GTTGCGTGGGTTACAAAGTCAGGTAAATCTGACTTGGAAGTCCCAATTGCT
genomic: GGATTCGCCCCTGAGgtttgtatat ... ttttgtttagGTTGCGTGGGTTACAAAGTCAGGTAAATCTGACTTGGAAGTCCCAATTGCT
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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
AATCAAGAAAATGAAGGTCAAGAATTGCTATTTCCCTCTGTTTGTATCTCCTGGTGTCTTAGAAAAGGAGAAGGACCACATCGAGGGATTCGCCCCTGAGgtttgtatatcttgtagatcttgtttgtgaagaaaaaggccttcttataacagatctcattgttttgtttag
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGGAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGGAGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GGAGAA