Sequence
atgc intronic sequence ATGC exonic sequenceTGTGATAAAACCAGCTCCTGGAAAGAGAAAGTGTAACTGCAGGAACGAGGTCTATCACAGACAAATTGGTCCTGGAATGTTCCAACAGATGACAGAGCAGgtaaaggacggatatgttcaattgtcacagatggtcttgttccaacctaattactgtttaacgacgtatcctcttcttcccctcag
Basic information
species | Arabidopsis thaliana |
transcript | AT3G62600.1 |
intron # | 5 |
splice site | 5' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: AT3G62600.1 (Arabidopsis thaliana), 5'ss of exon 5
lower sequence: LOC_Os05g06440.1 (Oryza sativa), 5'ss of exon 5
TGTGATAAAACCAGCTCCTGGAAAGAGAAAGTGTAACTGCAGGAACGAGGTCTATCACAGACAAATTGGTCCTGGAATGTTCCAACAGATGACAGAGCAGgtaaaggacggatat-gttcaattgt--cacagatggtcttgttccaacctaattac-----tgtttaacgacgtatcctcttcttcccctcag---------------------------
|| ||||| ||||| || |||||||| || || ||||| ||||| || || || |||||||||||||| ||||||| ||||| ||||| ||||||||| | | | | | || | ||||| | | | || | ||| ||| || | |||| ||| | || ||| | ||
CGTCATAAAGCCAGCACCAGGAAAGAGGCGATGCAATTGCAGAAACGAAGTTTACCATAGACAAATTGGTCCAGGAATGTATCAACAAATGACCGAGCAGgtattgattgccccttgctgtgttattccacagtttggcatgatttaacataaatatctttatttttattcttttattgtttttttcactccataataataggttgcatttgtctttttag
upper sequence: AT3G62600.1 (Arabidopsis thaliana), 5'ss of exon 5
lower sequence: GRMZM2G086964_T02 (Zea mays), 5'ss of exon 5
TGTGATAAAACCAGCTCCTGGAAAGAGAAAGTGTAACTGCAGGAACGAGGTCTATCACAGACAAATTGGTCCTGGAATGTTCCAACAGATGACAGAGCAGgtaaaggacggatatgttcaattgtcacagatggtcttgttccaacctaattactgtttaacgacgtat-cctcttcttcccctcag-------------
||| ||||| ||||| || |||||||| || ||||| |||||||| || || || ||||||| ||||||||||||| ||||||||||| ||||||||| | | | | | | | | | | | | || | || | | ||| | | | ||
TGTCATAAAGCCAGCACCAGGAAAGAGGCGCTGCAACTGTAGGAACGAAGTTTACCATCGACAAATAGGTCCTGGAATGTATCAACAGATGACTGAGCAGgtatttttcttgttacattgttcatgatctttattttaatccattgagagttgtgatatagaagggcaggcctggtgtagttttgagagctgtctcatgg
upper sequence: AT3G62600.1 (Arabidopsis thaliana), 5'ss of exon 5
lower sequence: GRMZM2G129218_T01 (Zea mays), 5'ss of exon 5
TGTGATAAAACCAGCTCCTGGAAAGAGAAAGTGTAACTGCAGGAACGAGGTCTATCACAGACAAATTGGTCCTGGAATGTTCCAACAGATGACAGAGCAGgtaaaggacggatatgttcaattgtcacagatggtcttgttccaacctaattactgtttaacgacgtatcctcttcttcccctcag
|| ||||| ||||| || |||||||| || ||||| |||||||| || || || ||||||| ||||||||||||| ||||||||||| |||||||| | | | | | || | | | | | || | || | | | |||| || | | ||
CGTCATAAAGCCAGCACCAGGAAAGAGGCGCTGCAACTGTAGGAACGAAGTTTACCATCGACAAATAGGTCCTGGAATGTATCAACAGATGACTGAGCAGgtctttttcttgctacattgttcatgatctatattttaatccattgagagttttgatatattaatgatgcttcttatttc--taag
upper sequence: AT3G62600.1 (Arabidopsis thaliana), 5'ss of exon 5
lower sequence: GLYMA19G40260.1 (Glycine max), 5'ss of exon 5
TGTGATAAAACCAGCTCCTGGAAAGAGAAAGTGTAACTGCAGGAACGAGGTCTATCACAGACAAATTGGTCCTGGAATGTTCCAACAGATGACAGAGCAGgtaaaggacggatat--gttcaattgtcacagatggtcttgttccaacctaattactgtttaacgacgtatcctcttcttcccctcag---------------
||| |||| ||||| |||| || ||| |||||||| || || ||||| ||||||| |||||||| ||||| ||||| ||||||||||||||||||||||| | || | | | | | | | || | || ||| | ||||| || | | || | | |||
TGTACTAAAGCCAGCATCTGGGAAAAGACGCTGTAACTGTAGAAATGAGGTTTATCACAAGCAAATTGGGCCTGGGATGTTTCAACAGATGACAGAGCAGgtaaacagcacatctcagaatgttgataggaaacaattttttctttactc--ttattttttaa-gaggcctatactgcaaacatacagatttcatgtttcatg
upper sequence: AT3G62600.1 (Arabidopsis thaliana), 5'ss of exon 5
lower sequence: GLYMA03G37650.1 (Glycine max), 5'ss of exon 5
TGTGATAAAACCAGCTCCTGGAAAGAGAAAGTGTAACTGCAGGAACGAGGTCTATCACAGACAAATTGGTCCTGGAATGTTCCAACAGATGACAGAGCAGgtaaaggacggatatgttca-attgtcac-agatggtcttgt-tccaacctaattactgtttaacgacgtatcctcttcttcccctcag------------
||| |||| || |||||||| || ||| |||||||| || || ||||| ||||||| |||||||| ||||| ||||| ||||||||||||||||||||||| | || || | ||| | | | | || | | || || | | | ||||| || | | || | | |||
TGTACTAAAGCCTGCTCCTGGGAAAAGACGCTGTAACTGTAGAAATGAGGTTTATCACAAGCAAATTGGGCCTGGGATGTTTCAACAGATGACAGAGCAGgtaaacagcacatctgagaatgttgataggaaacaattttttcttcactcttgtcattttttaa-gagggctatactgcaaacatacagatttcatgtttc
upper sequence: AT3G62600.1 (Arabidopsis thaliana), 5'ss of exon 5
lower sequence: Vv07s0005g01220.t01 (Vitis vinifera), 5'ss of exon 5
TGTGATAAAACCAGCTCCTGGAAAGAGAAAGTGTAACTGCAGGAACGAGGTCTATCACAGACAAATTGGTCCTGGAATGTTCCAACAGATGACAGAGCAGgtaaaggacggat-atgttcaattgtcacagatggtcttgt------tccaacctaattactgtttaacgacgtat--cctcttcttcccctcag--------------------------------------------------------------------------------
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TGTTTTAAAGCCAGCCCCAGGTAAGAGACGCTGTAACTGTCGGAATGAAGTCTATCACAAGCAAATTGGTCCAGGGATGTTCCAGCAGATGACAGAGCAGgtattccacctctcaagcagttctgtaacagaaattcttatgagttatttatttttaaaaggattaaacattgtgcagccctttttttggctcctcctttccatcctcattattattcaatactgtacatatttgtggcactcactctattgcatcctttactattatcattcagMapped 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|124851446|gb|EH935883.1|EH935883EST: TCTATCACAGACAAATTGGTCCTGGAATGTTCCAACAGATGACAGAGCAG GTCTGTGACAAATGCCCTAATGTCAAATACG
genomic: TCTATCACAGACAAATTGGTCCTGGAATGTTCCAACAGATGACAGAGCAGgtaaaggacg ... ttcccctcagGTCTGTGACAAATGCCCTAATGTCAAATACG
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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
TGTGATAAAACCAGCTCCTGGAAAGAGAAAGTGTAACTGCAGGAACGAGGTCTATCACAGACAAATTGGTCCTGGAATGTTCCAACAGATGACAGAGCAGgtaaaggacggatatgttcaattgtcacagatggtcttgttccaacctaattactgtttaacgacgtatcctcttcttcccctcag
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - CAGATG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGAGCA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GAGCAG