Sequence
atgc intronic sequence ATGC exonic sequenceAATTCAATCTGTCAAAAAAGGAGCTGCTCAAGAAGGCATGACCATAAGAGATTATATATGGCGTGGTCATGATCCTACTTCTGTTGCTGTTATGACTGAGgtattactttatacttggatctgatttgaacatatgtagaaaccaagtaaaggaatgttgttagagtcgttgaaaacactgttaaattgtattatgttcttatttgtctgtttgtgactattgtaaatgcacag
Basic information
species | Arabidopsis thaliana |
transcript | AT1G51610.1 |
intron # | 7 |
splice site | 5' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: AT1G51610.1 (Arabidopsis thaliana), 5'ss of exon 7
lower sequence: LOC_Os04g23180.1 (Oryza sativa), 5'ss of exon 7
AATTCAATCTGTCAAAAAAGGAGCTGCTCAAGAAGGCATGACCATAAGAGATTATATATGGCGTGGTCATGATCCTACTTCTGTTGCTGTTATGACTGAGgt-attactttatacttggat---ctgatttgaacatatgtagaaaccaagtaaaggaatgttgttagagtcgttgaaaacactgttaaattgtattatgttcttatttgtctgtttgtgactattgtaaatgcacag
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TATAAAGGCTGTTAGGAAGGGTGCAGCAGCAGAAGGAATGAGTATCAGGGACTACATCTGGCGTGGTCATGATCCAACTTCAGTTGCTGTCATGACTGAAgtgagtgatgtgttctagactacctcaatacttttttttttcatgtcgaaatgaaattttgtttctaaaacagttgatgactgcttcagttgctcataag--------------------------------------
upper sequence: AT1G51610.1 (Arabidopsis thaliana), 5'ss of exon 7
lower sequence: GRMZM2G065839_T01 (Zea mays), 5'ss of exon 7
AATTCAATCTGTCAAAAAAGGAGCTGCTCAAGAAGGCATGACCATAAGAGATTATATATGGCGTGGTCATGATCCTACTTCTGTTGCTGTTATGACTGAGgtattactttatacttggatctgatttgaacatatgtagaaaccaagtaaaggaatgttgttagagtcgttgaaaacactgttaa--attgtattatgttcttatttgtctgtttgtgactattgtaaatgcacag
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TATAAAGGCTGTTAGGAAAGGTGCAGAAGCAGAGGGAATGAGTATCTGGGACTATATCTGGCGTGGTCATGATCCAACTTCCGTTGCTGTTATGACTGAAgt-tagtaatatgact--acctaac---agtttttatgtagttcaatcacatcatcatactcattttcgtttctgccatttgtaatggttgactttaatggaaact------------------------------
upper sequence: AT1G51610.1 (Arabidopsis thaliana), 5'ss of exon 7
lower sequence: GLYMA07G02280.1 (Glycine max), 5'ss of exon 7
AATTCAATCTGTCAAAAAAGGAGCTGCTCAAGAAGGCATGACCATAAGAGATTATATATGGCGTGGTCATGATCCTACTTCTGTTGCTGTTATGACTGAGgtattactttatacttggatctgatttgaacatatgtagaaaccaagtaaaggaatgttgttagagtcgttgaaaacactgttaaattgtattatgttcttatttgtctgtttgtgactattgtaaatgcacag
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CATACAAGCTGTCAAGAAAGGTGCAGCTGCGGAGGGAATGAAATTAAGAGACTATATTTGGCGAGGCCATGATCCTACATCTGTTGCTGTGATGACGGAGgtggcaatttgt---------tgcctt---tatctttagttcccaaacatgttacggtttatttggtttaaacaagcattgctga--tgcatggtgggggggataatttagaaa--------------------
upper sequence: AT1G51610.1 (Arabidopsis thaliana), 5'ss of exon 7
lower sequence: GLYMA08G23740.1 (Glycine max), 5'ss of exon 7
AATTCAATCTGTCAAAAAAGGAGCTGCTCAAGAAGGCATGACCATAAGAGATTATATATGGCGTGGTCATGATCCTACTTCTGTTGCTGTTATGACTGAGgtattactttatacttggatctgatttgaacatatgtagaaaccaagtaaaggaatgttgttagagtcgttgaaaacactgttaaattgtattatgttcttatttgtctgtttgtgactattgtaaatgcacag
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CATACAAGCTGTCAAGAAAGGTGCTGCTGCAGAGGGAATGAAATTAAGAGACTATATTTGGCGAGGCCATGATCCCACATCTGTTGCTGTGATGACAGAGgtgacaacttgt---tgcacttatctt---------tagttcccaaacatgttatggtttatttggtttaaacaagcattgctgatgcat-ttatgctccccatggtaaagat---------------------
upper sequence: AT1G51610.1 (Arabidopsis thaliana), 5'ss of exon 7
lower sequence: Vv09s0054g00220.t01 (Vitis vinifera), 5'ss of exon 7
AATTCAATCTGTCAAAAAAGGAGCTGCTCAAGAAGGCATGACCATAAGAGATTATATATGGCGTGGTCATGATCCTACTTCTGTTGCTGTTATGACTGAGgtattactttatacttggatctgatttgaacatatgtagaaacca-agtaaaggaatgttgttagagtcgttgaaaacactgttaaattgtattatgttcttatttgtctgtttgtgactattgtaaatgcacag
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CATACATGCTGTCAAGAAAGGGGCAGCTGCAGAGGGAATGAAGGTGAGAGATTATGTTTGGCGTGGTCATGATCCTACATCTGTTGCAGTCATGACAGAGgtaattgcctgtgccttgttcactttcaatggttggaaataatgacagcattactttaagattaagtcttctataagttctgtgtactagagttgcttcc-----------------------------------Mapped 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|86065271|gb|DR361028.1|DR361028EST: ATTATATATGGCGTGGTCATGATCCTACTTCTGTTGCTGTTATGACTGAG GATGGCGCTGCAGTGGCAGGTTTGGCAATTGCTGCCGCATCTCTTGTCGCT
genomic: ATTATATATGGCGTGGTCATGATCCTACTTCTGTTGCTGTTATGACTGAGgtattacttt ... aaatgcacagGATGGCGCTGCAGTGGCAGGTTTGGCAATTGCTGCCGCATCTCTTGTCGCT
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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
AATTCAATCTGTCAAAAAAGGAGCTGCTCAAGAAGGCATGACCATAAGAGATTATATATGGCGTGGTCATGATCCTACTTCTGTTGCTGTTATGACTGAGgtattactttatacttggatctgatttgaacatatgtagaaaccaagtaaaggaatgttgttagagtcgttgaaaacactgttaaattgtattatgttcttatttgtctgtttgtgactattgtaaatgcacag
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GCTGTT