Sequence
atgc intronic sequence ATGC exonic sequencegttagaccctctgaaaaaacttgaattacagtactactttgttctagttctaatcatcttataaggattttcgtgcttcctgcaccagACATTAATGAGTGCAAAGAGAAGAAAGCATGCCAGTGCCCAGAGTGTAGCTGCAAGAACACATGGGGAAGCTATGAGTGCTCTTGTAGCGGGGACCTTCT
Basic information
species | Arabidopsis thaliana |
transcript | AT2G14740.1 |
intron # | 9 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: AT2G14740.2 (Arabidopsis thaliana), 3'ss of exon 9
lower sequence: GLYMA20G27000.1 (Glycine max), 3'ss of exon 9
gttagaccct---ctgaaaaaacttgaattacagtactact--ttgttctagttctaatcatcttataaggattt-------tcgtgcttcctgcaccagACATTAATGAGTGCAAAGAGAAGAAAGCATGCCAGTGCCCAGAGTGTAGCTGCAAGAACACATGGGGAAGCTATGAGTGCTCTTGTAGCGGGGACCTTCT
||| || | || | || | | | || | |||| | | ||| | || || | | |||||| |||||||| |||| ||||||||||||||||| || |||||||| || |||||||||||||| || |||||||||||||| ||| |||| || ||||| ||| |
attaatcctttgccttggcattgttaattgatgatatctttgaatgttttcatcataactaaaagccaaatatctgaactccttttgcttcacctttcagACATTGATGAATGCAAAGAGAAGAAAGCTTGTCAGTGCCCTGAATGTAGCTGCAAGAATACTTGGGGAAGCTATGACTGCACTTGCAGTGGGGATCTTTT
upper sequence: AT2G14740.2 (Arabidopsis thaliana), 3'ss of exon 9
lower sequence: GLYMA10G40340.1 (Glycine max), 3'ss of exon 9
----------gttagaccctctgaaaaaacttgaattacagtactactttgttctagttctaatcatcttataaggatt--ttcgtgcttcctgcac-cagACATTAATGAGTGCAAAGAGAAGAAAGCATGCCAGTGCCCAGAGTGTAGCTGCAAGAACACATGGGGAAGCTATGAGTGCTCTTGTAGCGGGGACCTTCT
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taatcctttgccttggcattgttaattga-tgatacctttgaatcttttcatcataactaaaagcaaaatatctgaactcttttttgcctcatcctttcagACATTGACGAATGCAAAGAGAAGAAAGCTTGTCAGTGCCCTGAATGTAGCTGCAAGAATACTTGGGGAAGCTATGACTGCACTTGCAGTGGGGATCTTTT
upper sequence: AT2G14740.2 (Arabidopsis thaliana), 3'ss of exon 9
lower sequence: GLYMA11G00370.1 (Glycine max), 3'ss of exon 9
---------gttagaccctctga-aaaaacttga-attacagtactact--ttgttctagttctaatcatcttataaggattttcgtgcttcctgcaccagACATTAATGAGTGCAAAGAGAAGAAAGCATGCCAGTGCCCAGAGTGTAGCTGCAAGAACACATGGGGAAGCTATGAGTGCTCTTGTAGCGGGGACCTTCT
||| || | | ||||||| |||| ||| | ||||| | ||| | | | | || || || || ||| ||| |||| |||||||||||||| || || |||||||| || |||||||||||||| || |||||||||||||| ||| |||||| || || |||||
aatctgtgggtttgaacaagtattgcgaacttgatgatacatacctagtgattgttttccacataacaagtgaaactgaacttatgtttcatctttac-agATATTGATGAATGCAAAGAGAAGAAGGCTTGTCAGTGCCCTGAATGTAGCTGCAAGAATACGTGGGGAAGCTATGACTGCAGTTGTAGTGGAGATCTTCT
upper sequence: AT2G14740.2 (Arabidopsis thaliana), 3'ss of exon 9
lower sequence: GLYMA01G45380.1 (Glycine max), 3'ss of exon 9
--------gttagaccctctgaaaaaacttgaattacagtactactttgttctagttctaatcatcttataaggattt----tcgtgcttcctgcac-cagACATTAATGAGTGCAAAGAGAAGAAAGCATGCCAGTGCCCAGAGTGTAGCTGCAAGAACACATGGGGAAGCTATGAGTGCTCTTGTAGCGGGGACCTTCT
| | | |||| | ||| | | ||| | || ||| | ||| | | | || | || ||| | | |||| || |||| |||||||||||||| || || |||||||| || |||||||||||||| || |||||||||||||| ||| |||||| || || |||||
tcttctcaatccgtgggtttgaagtattgcgaact-tgatgatacctagtgaatgttttccacataacacgtgaaattgaacttatgtttcatctatacagATATAGATGAATGCAAAGAGAAGAAGGCTTGTCAGTGCCCTGACTGTAGCTGCAAGAATACTTGGGGAAGCTATGACTGCAGTTGTAGTGGAGATCTTCT
upper sequence: AT2G14740.2 (Arabidopsis thaliana), 3'ss of exon 9
lower sequence: Vv03s0091g00740.t01 (Vitis vinifera), 3'ss of exon 9
-----------gttagaccctctgaaaaaacttgaattac---agtactactttgttctagttctaatcatcttataaggattttcgtgcttcctgcaccagACATTAATGAGTGCAAAGAGAAGAAAGCATGCCAGTGCCCAGAGTGTAGCTGCAAGAACACATGGGGAAGCTATGAGTGCTCTTGTAGCGGGGACCTTCT
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tattttcagttgaaagcatgttaaagagaagtcaaaatttgtgaacagaatcctaagttgacattgctgtttttatgtaactgtttctcttacctta--cagATGTTGATGAATGCAAAGAAAAGAAAGCCTGTCAGTGCCCTGAATGCAGCTGCAAAAACACATGGGGTAGCTACGAGTGCACTTGCAGTGGGGATCTTTTMapped 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|125226820|gb|EL240905.1|EL240905EST: GTGCGAGTGTCCTCCAGGATTTAAAGGAGATGGTACTAAGAAGTGTGAAG ACATTAATGAGTGCAAAGAGAAGAAAGCATGCCAGT
genomic: GTGCGAGTGTCCTCCAGGATTTAAAGGAGATGGTACTAAGAAGTGTGAAGgttagaccct ... cctgcaccagACATTAATGAGTGCAAAGAGAAGAAAGCATGCCAGT
atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.ctactttgttctagttctaatcatcttataaggattttcgtgcttcctgcaccagACATTAATGAGTGCAAAGAGAAGAAAGCATGCCAGTGCCCAGAGTGTAGCTGCAAGAACACATGGGGAAGCTATGAGTGCTCTTGTAGCGGGGACCTTCT
ttctaat putative branch site (score: 2)
ttttcgtgcttcct putative PPT
taatcatcttataa 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gttagaccctctgaaaaaacttgaattacagtactactttgttctagttctaatcatcttataaggattttcgtgcttcctgcaccagACATTAATGAGTGCAAAGAGAAGAAAGCATGCCAGTGCCCAGAGTGTAGCTGCAAGAACACATGGGGAAGCTATGAGTGCTCTTGTAGCGGGGACCTTCT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GCAAGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGAAC