Sequence
atgc intronic sequence ATGC exonic sequence...gctcttatctctgtatgttctgtgagatataaaacctacttccatgtaaggtttatgccttttgccacagcataagcataactaaatttaacttgtgcagACATGAGCTATTACTTTTCGAGGCTCTTCAAGAAGGTCTAGAAGAAGAGATGGACAGAGATCCACATGTATGTGTCATGGGTGAAGATGTAGGCCATTAC
Basic information
species | Arabidopsis thaliana |
transcript | AT2G34590.1 |
intron # | 3 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: AT2G34590.1 (Arabidopsis thaliana), 3'ss of exon 3
lower sequence: GLYMA14G10550.1 (Glycine max), 3'ss of exon 3
gctcttatctctgtatgttctgtgagatataaaacctacttccatgtaaggtttatg-ccttttgccacagcat-aagcataactaaatttaacttgtgcagACATGAGCTATTACTTTTCGAGGCTCTTCAAGAAGGTCTAGAAGAAGAGATGGACAGAGATCCACATGTATGTGTCATGGGTGAAGATGTAGGCCATTAC
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tagtcaatacatgaaattgctaaaagcatttttttttgtttcctattatgagttatgaccaataatgatggaattaaccatgcatgcattttattttt--agGCATGAACTTCTCCTTTTTGAGGCCCTACGTGAAGGTTTGGAGGAAGAAATGGAGAGGGATCCTTGTGTATGTGTCATGGGTGAAGATGTAGGTCATTAT
upper sequence: AT2G34590.1 (Arabidopsis thaliana), 3'ss of exon 3
lower sequence: GLYMA17G34960.1 (Glycine max), 3'ss of exon 3
gctcttatctctgtatgttctgtgaga----tataaaacctacttccat-gtaaggtttatgccttttgccacagcat-aagcataactaaatttaacttgtgcagACATGAGCTATTACTTTTCGAGGCTCTTCAAGAAGGTCTAGAAGAAGAGATGGACAGAGATCCACATGTATGTGTCATGGGTGAAGATGTAGGCCATTAC
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---tcaatacatgaagttgctaaaaacattttttttggtttcctcctattgtgaggtatgc-ccaataatgatggaattaaccatgtatgcattttattttt--agGCATGAACTTCTCCTTTTTGAGGCCCTACGCGAAGGTTTGGAGGAAGAAATGGAGAGGGATCCTTGTGTATGTGTCATGGGTGAAGATGTAGGTCATTAT
upper sequence: AT2G34590.1 (Arabidopsis thaliana), 3'ss of exon 3
lower sequence: GLYMA05G27260.1 (Glycine max), 3'ss of exon 3
-gctcttatctctgtatgttctgtgagatataaaacctacttccatgtaaggtttatgccttttgccacagc--ataagcataactaaatttaacttgtgcagACATGAGCTATTACTTTTCGAGGCTCTTCAAGAAGGTCTAGAAGAAGAGATGGACAGAGATCCACATGTATGTGTCATGGGTGAAGATGTAGGCCATTAC
| | || | | | || ||| | ||| ||| ||| | ||||| | || | |||| |||| | |||| | || | || ||||| || | ||||| ||||| || | |||||| | |||||||| ||||| || ||||| ||||||||||||||| ||||||||||| || ||
agttgctaaaatttttttttttgtttgctattggcagcactgat-tgtgtgagttatgaccaatgatgatggaaataaccatatatgcattttattttt--agGCATGAACTTCTCCTTTTTGAGGCCCTACGTGAAGGTTTGGAAGAAGAAATGGAGAGGGATCCTTGTGTATGTGTCATGGGCGAAGATGTAGGTCACTAT
upper sequence: AT2G34590.1 (Arabidopsis thaliana), 3'ss of exon 3
lower sequence: GLYMA08G10200.1 (Glycine max), 3'ss of exon 3
---gctcttatctctgtatgttctgtgagatataaaacctacttccatgtaaggt-ttatgccttttgccacagcataagcataactaaatttaacttgtgcagACATGAGCTATTACTTTTCGAGGCTCTTCAAGAAGGTCTAGAAGAAGAGATGGACAGAGATCCACATGTATGTGTCATGGGTGAAGATGTAGGCCATTAC
| | | | | | | | || | || | || | |||||| | | | ||| ||| | |||| | || | || ||||| || | ||||| ||||| || | |||||| | |||||||| ||||| || ||||| ||||||||||||||| ||||||||||| || ||
acaagtgccaaattcaaagttgttaaaaaacattttttttgtttgctattaccttgttatgcactg-attgtaac-taactatatatgcattttattttt--agGCATGAACTTCTCCTTTTTGAGGCCCTACGTGAAGGTTTGGAAGAAGAAATGGAGAGGGATCCTTGTGTATGTGTCATGGGCGAAGATGTAGGTCACTAT
upper sequence: AT2G34590.1 (Arabidopsis thaliana), 3'ss of exon 3
lower sequence: Vv10s0003g03770.t01 (Vitis vinifera), 3'ss of exon 4
gctcttatctctgtatgttctgtgagatataaaacctacttccatgtaaggtttatgccttttgccacagcataagcataactaaatttaacttgtgcagACATGAGCTATTACTTTTCGAGGCTCTTCAAGAAGGTCTAGAAGAAGAGATGGACAGAGATCCACATGTATGTGTCATGGGTGAAGATGTAGGCCATTAC
| || ||| | | ||| ||| || | | | | | || | || || || || ||| |||||||| |||| || || || |||| |||||| || |||||||| |||||||||||||| | ||||| || |||||||||||||| ||||| ||
gagtctaattcttttttttcattgattaggccaattcattggctttcatcagaaatctcaaaacaagtagtgatgctattttcctgatttctttcctcagGCATGAGCTTCTACTATTTGAAGCCCTTCGAGAAGGCCTGGAAGAAGAAATGGACAGAGATCCCCTAGTATGCGTAATGGGTGAAGATGTGGGCCACTATMapped 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|164053032|gb|ES187480.1|ES187480EST: ACGAAGGCGGACACTGCTGCGAGCTCTACTTCATCAAAGCCTGG ACATGAGCTATTACTTTTCG
genomic: ACGAAGGCGGACACTGCTGCGAGCTCTACTTCATCAAAGCCTGGgtatgttctg ... acttgtgcagACATGAGCTATTACTTTTCG
atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.gtaaggtttatgccttttgccacagcataagcataactaaatttaacttgtgcagACATGAGCTATTACTTTTCGAGGCTCTTCAAGAAGGTCTAGAAGAAGAGATGGACAGAGATCCACATGTATGTGTCATGGGTGAAGATGTAGGCCATTAC
ataactaaatttaact 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gctcttatctctgtatgttctgtgagatataaaacctacttccatgtaaggtttatgccttttgccacagcataagcataactaaatttaacttgtgcagACATGAGCTATTACTTTTCGAGGCTCTTCAAGAAGGTCTAGAAGAAGAGATGGACAGAGATCCACATGTATGTGTCATGGGTGAAGATGTAGGCCATTAC
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GAGATC
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TGAAGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGATG
- - - atctctg
- - - - - - - - - - - - - - - -aaaccta
- - - - - - - - - - - - - - - - - - - - -ccatgta
- - - - - - - - - - - - - - - - - - - - - - - - -ggtttat
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - cataagc
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -aactaaa