Sequence
atgc intronic sequence ATGC exonic sequencegtaatatatatgaagagagacctcagaaagcaaatgaatcttttttgtaatgtgttttgtgtgtttctgcttcagATTGAAGGATCTTTTGTTCAAGGACTTGGGTTTTTCATGCTTGAAGAGTACATAGAAGATCCAGAAGGACTCCTTCTGACGGATAGCACATGGACATACA
Basic information
species | Arabidopsis thaliana |
transcript | AT3G43600.1 |
intron # | 7 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: AT3G43600.1 (Arabidopsis thaliana), 3'ss of exon 7
lower sequence: GLYMA02G44000.2 (Glycine max), 3'ss of exon 3
-------gtaatatatatgaagagagacctcagaaagcaaatg---aatcttttttgta---------atgtgtttt----gtgtgtttctg--cttcagATTGAAGGATCTTTTGTTCAAGGACTTGGGTTTTTCATGCTTGAAGAGTACATAGAAGATCCAGAAGGACTCCTTCTGACGGATAGCACATGGACATACA
||| | |||| || | | | | | || | | ||| | || ||| | || | | || | || |||||||||||| ||||||| || || | |||||||||||||||||||| ||| | | ||| || || | | | ||| |||| |||| ||||
aggtcctagaatgtctatggtctcttactacttagaactattgttcagttgtttctctatgaatatttatgcttcttaacaatataattgtatcctgcagATTGAAGGAGCTTTTGTCCAGGGGTTAGGGTTTTTCATGCTTGAAGAATACGAAACAAATCTTGATGGTTTGGTGTTACAAGATGGCACTTGGAACTACA
upper sequence: AT3G43600.1 (Arabidopsis thaliana), 3'ss of exon 7
lower sequence: GLYMA02G44000.1 (Glycine max), 3'ss of exon 8
----------------------------gtaatatatatgaagagagacctcagaaagcaaatgaatcttttttg-taatgtgttttgtgtgtttctgcttcagATTGAAGGATCTTTTGTTCAAGGACTTGGGTTTTTCATGCTTGAAGAGTACATAGAAGATCCAGAAGGACTCCTTCTGACGGATAGCACATGGACATACA
| | | | | | | | | ||| | || ||||| ||| | || | | |||||||||||||||||| | ||||| | || ||||||||||||||||| || | | ||| || || | | || ||| | ||||||| ||||
ttgttttagttctttggttccttttcctgaagttgtcagcttgtcaaattaccaagtctgaataactcaattttgataacaaa----ataatttcttcttacagATTGAAGGATCTTTTATCCAAGGGTTGGGTTTTTTCATGCTTGAAGAATATGAAACAAATCTTGACGGTTTGATCTTGGTAGATGGTACATGGAACTACA
upper sequence: AT3G43600.1 (Arabidopsis thaliana), 3'ss of exon 7
lower sequence: Vv18s0041g02410.t01 (Vitis vinifera), 3'ss of exon 7
-----------------------gtaatatat----atgaagagagacctcagaaagcaaatgaatcttttttgtaatgtgttttgtgtgtttctgcttcagATTGAAGGATCTTTTGTTCAAGGACTTGGGTTTTTCATGCTTGAAGAGTACATAGAAGATCCAGAAGGACTCCTTCTGACGGATAGCACATGGACATACA
||| | | || | | | | || || | | |||| | ||| || ||| || | ||||| |||||| |||||||||||||| |||||||||| ||||| || ||||||| | || |||| ||||| | | || || |||||||||| ||||
tactaaaggatgtttataactgttcaatgtttccttatccttaaaacttgtgcttattagatccatatgcctc-taatattctttctgagttgct-ttacagATAGAAGGAGCTTTTGTTCAAGGAATTGGGTTTTTTATGCTCGAGGAGTACACAACTAATTCAGATGGACTGGTGGTCACCGAAGGCACATGGACTTACA
upper sequence: AT3G43600.1 (Arabidopsis thaliana), 3'ss of exon 7
lower sequence: Vv18s0041g02390.t01 (Vitis vinifera), 3'ss of exon 7
----------------------gtaatatatatgaagagagacc-tcagaaagcaaatgaatcttttttg---taatgtgttttgtgtgtttctgcttcagATTGAAGGATCTTTTGTTCAAGGACTTGGGTTTTTCATGCTTGAAGAGTACATAGAAGATCCAGAAGGACTCCTTCTGACGGATAGCACATGGACATACA
|| | | | | | | | | | ||| | | | ||| | ||| || ||| || | ||||| |||||| |||||||||||||| |||||||||| |||||||| || |||| | || |||| ||||| | | || | |||||||||||||||
tgttcaatgtttccctattcttaaaacttgtgtttatttaattgattattggtttatttgatccatgtggctctaacattctttctgagttgct-ttacagATAGAAGGAGCTTTTGTTCAAGGAATTGGGTTTTTTATGCTTGAGGAATACACAACTAATGCAGATGGACTGGTGGTCACTAAAGGCACATGGACATACA
upper sequence: AT3G43600.1 (Arabidopsis thaliana), 3'ss of exon 7
lower sequence: Vv18s0041g02430.t01 (Vitis vinifera), 3'ss of exon 8
------------gtaatatatatgaagagagacctcag----aaagcaaatgaatcttt----------tttgtaatgtgttttgtgtgtttctgcttcagATTGAAGGATCTTTTGTTCAAGGACTTGGGTTTTTCATGCTTGAAGAGTACATAGAAGATCCAGAAGGACTCCTTCTGACGGATAGCACATGGACATACA
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tactgtaggatgtttataactgttcaatgtttccttatccttaaaacttgtgcttatttgatccatatgcctctaatattctttctgagttgct-ttacagATAGAAGGAGCTTTTGTTCAAGGAATTGGGTTTTTTATGCTGGAAGAGTACACAACTAATTCAGATGGACTGGTGGTCACCGAAGGCACATGGACATACAMapped 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|125116403|gb|EL165958.1|EL165958EST: TCTTATATGACTGTGGAAAAAGTCTCAATCCCGCTGTCGATTTAGGACAG ATTGAAGGATCTTTTTGTTCAAGGACTTTGGGTTTTTCA
genomic: TCTTATATGACTGTGGAAAAAGTCTCAATCCCGCTGTCGATTTAGGACAGgtaatatata ... tctgcttcagATTGAAGGATCTTTT-GTTCAAGGACTT-GGGTTTTTCA
atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.cctcagaaagcaaatgaatcttttttgtaatgtgttttgtgtgtttctgcttcagATTGAAGGATCTTTTGTTCAAGGACTTGGGTTTTTCATGCTTGAAGAGTACATAGAAGATCCAGAAGGACTCCTTCTGACGGATAGCACATGGACATACA
tttctgcttc CT-rich tract
aaatgaatctttttt 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gtaatatatatgaagagagacctcagaaagcaaatgaatcttttttgtaatgtgttttgtgtgtttctgcttcagATTGAAGGATCTTTTGTTCAAGGACTTGGGTTTTTCATGCTTGAAGAGTACATAGAAGATCCAGAAGGACTCCTTCTGACGGATAGCACATGGACATACA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - CATGGA