Sequence
atgc intronic sequence ATGC exonic sequencegttaatttctggctttttgcttctcctctaatgttatttgagctttagcatagtaagtgactacagcattttgtttctatgaattacacagATGGGATACTTCTTCTTGAAGTTAATAGAATGCTTAGAGCAGGAGGCTACTTTGTTTGGGCTGCACAACCCGTTTACAAACATGAGGATAACTTGCAAGA
Basic information
species | Arabidopsis thaliana |
transcript | AT1G77260.1 |
intron # | 3 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: AT1G77260.1 (Arabidopsis thaliana), 3'ss of exon 3
lower sequence: GRMZM2G042295_T01 (Zea mays), 3'ss of exon 3
gttaatttctggctttttgcttctcctctaatgttatttgagctttagcatagtaagtgacta------cagcattttgtttctatgaat-----tacacagATGGGATACTTCTTCTTGAAGTTAATAGAATGCTTAGAGCAGGAGGCTACTTTGTTTGGGCTGCACAACCCGTTTACAAACATGAGGATAACTTGCAAGA
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--atatctttacatttaaacttgatcgcaaatatgatgtgccactcatctatgtactttccaagtttgcctaagttttgttatcatatttgtttatttggagATGGTATCCTGCTCCTGGAGGTTAATAGATTACTTAGAGCTGGAGGCTACTTTGCTTGGGCAGCACAACCTGTTTATAAGCATGAACAGGCCCAACAAGA
upper sequence: AT1G77260.1 (Arabidopsis thaliana), 3'ss of exon 3
lower sequence: GRMZM2G092120_T02 (Zea mays), 3'ss of exon 3
-----------gttaatttctg-gctttttgcttctcctctaatgttatttgagctttagcatagtaagtgactacagcattttgtttctatgaattacacagATGGGATACTTCTTCTTGAAGTTAATAGAATGCTTAGAGCAGGAGGCTACTTTGTTTGGGCTGCACAACCCGTTTACAAACATGAGGATAACTTGCAAGA
|| || || | | | ||| | | | | | || | | || | || | ||| | | | | |||||| || || || || || ||||||||| |||||||||| ||||||||||||| |||||| || ||||| ||||| || ||||| || | |||||
tttcatttaaacttgatctcaaaggtatgtgcacttatctatgtactttccaaatttgcctaagttttgtacttttgttatcatatttgtttatttga---agATGGTATCCTGCTCCTGGAGGTTAATAGATTGCTTAGAGCTGGAGGCTACTTTGCTTGGGCAGCCCAACCTGTTTATAAGCATGAAGAGGCCCAACAAGA
upper sequence: AT1G77260.1 (Arabidopsis thaliana), 3'ss of exon 3
lower sequence: GLYMA14G24900.1 (Glycine max), 3'ss of exon 3
-----gttaatttctggctttttgcttctc-ctctaatgttatttgagctttagcatagtaagtgactacagcattttgtttctatgaa----ttacacagATGGGATACTTCTTCTTGAAGTTAATAGAATGCTTAGAGCAGGAGGCTACTTTGTTTGGGCTGCACAACCCGTTTACAAACATGAGGATAACTTGCAAGA
||||| | |||| | | || | || |||| | | ||| | || ||||| ||| | | |||||| || | |||||||| | || || | || |||| || ||||||||||| ||||||||||| || |||||||||||||| || | | | |||||
actcgacgaatttaagaaaatttggataaaattacgatcacaattatgcttaatc-cagttcttagtactgatgttctgtttttatattgctttaatggagATGGAATTTTGCTTCTTGAGGCCAACAGGCTCCTGCGAGCGGGTGGCTACTTTGTCTGGGCTGCACAGCCTGTTTACAAACATGAAGAGACCCTTCAAGA
upper sequence: AT1G77260.1 (Arabidopsis thaliana), 3'ss of exon 3
lower sequence: GLYMA13G09520.1 (Glycine max), 3'ss of exon 3
-gttaatttctggctt-tttgcttctcctctaatgttatttgagctttagcatagtaagtgactaca---gcattttgtttctatga---attac-acagATGGGATACTTCTTCTTGAAGTTAATAGAATGCTTAGAGCAGGAGGCTACTTTGTTTGGGCTGCACAACCCGTTTACAAACATGAGGATAACTTGCAAGA
|| ||||| | || | | | | ||| | || |||| | || | | | |||||||| ||| | |||| |||||| || | |||||||| | || || | || || || || ||||||||||| ||||| ||||| || |||||||||||||| || | | | |||||
tgtgaatttaagaaaaattagatacaaatacaatcacaattatgcttaaaggctttagttctttgtactgatgttttgtttttataatgctttactggagATGGAATTTTGCTTCTTGAGGCCAACAGGCTCCTGAGGGCGGGTGGCTACTTTGTCTGGGCAGCACAGCCTGTTTACAAACATGAAGAGACCCTTCAAGA
upper sequence: AT1G77260.1 (Arabidopsis thaliana), 3'ss of exon 3
lower sequence: Vv18s0001g01600.t01 (Vitis vinifera), 3'ss of exon 3
------gttaatttctggctttttgcttctcctctaatgttatttgagctttagcatagtaagtgactacagcattt----tgtttctatgaattacac--agATGGGATACTTCTTCTTGAAGTTAATAGAATGCTTAGAGCAGGAGGCTACTTTGTTTGGGCTGCACAACCCGTTTACAAACATGAGGATAACTTGCAAGA
| | | || | || ||| |||| | | ||| | || | | | | | ||| ||||| | || || |||||| || || |||||||| || || || ||||| || |||||||| ||||||| |||||||||||| || ||||| |||||||| | ||| | |||||
agagggatggaatacttacatt---cttgatgactaaagctctttaatattgactgtttttcttttttcttttttttcttttgtttgtttggcttgtgataagATGGAATTCTGCTTCTTGAGGTCAACAGGATGCTAAGGGCAGGAGGATACTTTGCTTGGGCTGCACAGCCTGTTTATAAACATGAAGGGAACCTCCAAGAMapped 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|164002075|gb|ES214803.1|ES214803EST: CAGATGCAGAATTAATTGGACACGCGATG ATGGGATACTTCTTCTTGAAGTTAATAGAATGCTTAGAGCAGGAGGCTACT
genomic: CAGATGCAGAATTAATTGGACACGCGATGgttaatttct ... aattacacagATGGGATACTTCTTCTTGAAGTTAATAGAATGCTTAGAGCAGGAGGCTACT
atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.tttgagctttagcatagtaagtgactacagcattttgtttctatgaattacacagATGGGATACTTCTTCTTGAAGTTAATAGAATGCTTAGAGCAGGAGGCTACTTTGTTTGGGCTGCACAACCCGTTTACAAACATGAGGATAACTTGCAAGA
attttgttt 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gttaatttctggctttttgcttctcctctaatgttatttgagctttagcatagtaagtgactacagcattttgtttctatgaattacacagATGGGATACTTCTTCTTGAAGTTAATAGAATGCTTAGAGCAGGAGGCTACTTTGTTTGGGCTGCACAACCCGTTTACAAACATGAGGATAACTTGCAAGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GAGGAT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GCAAGA