Sequence
atgc intronic sequence ATGC exonic sequencegtgagttttctattgatgaatgtccttagtttcttagtagaggaaggaaacattttgatttgatattctgtttgtttttgcagCCGAGACAGACTAGTGGTGGCACTTGGATTGGATCTATTTGCAGTGAATGACGACAAGTTCATGGACATGTTCGTTGCTCCTGGAGCCATTGTGGTACTA
Basic information
species | Arabidopsis thaliana |
transcript | AT1G53140.1 |
intron # | 7 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: AT1G53140.1 (Arabidopsis thaliana), 3'ss of exon 7
lower sequence: GLYMA06G36650.1 (Glycine max), 3'ss of exon 7
---------------gtgagttttctattgatgaatgtc-cttagtttcttagtagaggaaggaaacattttgatttgatattctgtttgtttt-tgcagCCGAGACAGACTAGTGGTGGCACTTGGATTGGATCTATTTGCAGTGAATGACGACAAGTTCATGGACATGTTCGTTGCTCCTGGAGCCATTGTGGTACTA
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gtgcatgctattagattgcattataaatctgtatatggagctttattcttctttatatggaacaataacaccacctttgttctctgcttactttgtgcagCCGAGATCGACTATTGGTGGCTCTTGGCTTAGATTTATTTGCCGTGAAAGATGAGAAATTCATGGACATGTTTGTTGCTCCTGGTGCAATAGATGTGCTA
upper sequence: AT1G53140.1 (Arabidopsis thaliana), 3'ss of exon 7
lower sequence: GLYMA12G23480.1 (Glycine max), 3'ss of exon 7
---------------gtgagttttctattgatgaatgtccttagtttcttagtagaggaaggaaacattttga-tttgatattctgtttgtttt-tgcagCCGAGACAGACTAGTGGTGGCACTTGGATTGGATCTATTTGCAGTGAATGACGACAAGTTCATGGACATGTTCGTTGCTCCTGGAGCCATTGTGGTACTA
| || | ||| | | ||||| || | | |||| |||| | | || || ||| ||||||||||| | ||| | ||||| ||||| || ||| ||||||| ||||| || || || |||||||||||||| |||||||| || ||||| | || |||
cttacgaagaactttattcagcctcagtatatggagctttcattcttctttatatggaacaataacaccccacctttgttctgttgcttactttgtgcagCCGAGATCGGCTATTCGTGGCTCTTGGCTTAGATTTATTTGCTGTGAACGATGAGAAATTCATGGACATGTTTGTTGCTCCGGGTGCCATAGATGTGCTA
upper sequence: AT1G53140.1 (Arabidopsis thaliana), 3'ss of exon 7
lower sequence: Vv19s0014g02500.t01 (Vitis vinifera), 3'ss of exon 8
---------------gtgagttttctattgatgaatgtcc-ttagtttcttagtagaggaaggaaacattttgatttgatattctgtttgtttt--tgcagCCGAGACAGACTAGTGGTGGCACTTGGATTGGATCTATTTGCAGTGAATGACGACAAGTTCATGGACATGTTCGTTGCTCCTGGAGCCATTGTGGTACTA
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acatatttatgcagtttatatgttttattcagttatttcagttactacctcaata-aggaaaagattagaataatctcttattctctttccattaatgcagCCGGGATCGACTTATGATGGCACTTGGATTGGATTTGTTTGCTGTAAACGACGAGAAATTCATGGATATGTTTGTTGCACCTGGGGCAATCGATATCCTTMapped 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|19741215|gb|AU226568.1|AU226568EST: GTCGAAAGAAGCGTAACATCAACTCTAAACTCAGGATTTCTAACTCCTTG CCGAGACAGACTAGTGGTGGCACTTGGATT-GATCTATTTCCAGTGAATGA
genomic: GTCGAAAGAAGCGTAACATCAACTCTAAACTCAGGATTTCTAACTCCTTGgtgagttttc ... gtttttgcagCCGAGACAGACTAGTGGTGGCACTTGGATTGGATCTATTTGCAGTGAATGA
atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.gtttcttagtagaggaaggaaacattttgatttgatattctgtttgtttttgcagCCGAGACAGACTAGTGGTGGCACTTGGATTGGATCTATTTGCAGTGAATGACGACAAGTTCATGGACATGTTCGTTGCTCCTGGAGCCATTGTGGTACTA
ttctgtttgttttt CT-rich tract
attttgatttgatatt 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gtgagttttctattgatgaatgtccttagtttcttagtagaggaaggaaacattttgatttgatattctgtttgtttttgcagCCGAGACAGACTAGTGGTGGCACTTGGATTGGATCTATTTGCAGTGAATGACGACAAGTTCATGGACATGTTCGTTGCTCCTGGAGCCATTGTGGTACTA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - CATGGA