Sequence
atgc intronic sequence ATGC exonic sequencegtttactttgatatgattgcccttttcctaaatttgtggaatccagattctttgaagtgacaaaggcacacaaccttacattctcactctttaactctcttcttgcagGGAGAAATGCAGCAACTCCGCGATAAGCTTGCCATATCAGATCGAGCTGCGAAATCTGAAGCACAGCTAAAA
Basic information
species | Arabidopsis thaliana |
transcript | AT1G68060.1 |
intron # | 7 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: AT1G68060.1 (Arabidopsis thaliana), 3'ss of exon 7
lower sequence: LOC_Os12g44340.1 (Oryza sativa), 3'ss of exon 7
-----------------------------------------------------------------gtttactttgata--tgattgcccttttcctaaattt---gtggaatccagattctttgaagtgacaaaggcacacaaccttacattctcactctttaactctcttcttgcagGGAGAAATGCAGCAACTCCGCGATAAGCTTGCCATATCAGATCGAGCTGCGAAATCTGAAGCACAGCTAAAA
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gtaagtaatgctatcatttaattatgtgctattgctgacttgttctggatggatacagtgaagccttttaatgcaacaattgttttcacttttccccactcctaaacggagtatactatggttcatctttttggggtctaatttgttgggaattttcttttctttctttcttttgcagGGAGAAATGCAGCAACTCCGGGATAAACTGGCTATAGCAGAAAGGGCCGCACGATCAGAAGCTCAATTGAAA
upper sequence: AT1G68060.1 (Arabidopsis thaliana), 3'ss of exon 7
lower sequence: GRMZM2G017525_T01 (Zea mays), 3'ss of exon 3
-------------gtttactttgatatgattgcccttttcctaaatttgtggaatccagattctttgaagtgacaaaggcacacaaccttacattctcactctttaac-tctcttcttgcagGGAGAAATGCAGCAACTCCGCGATAAGCTTGCCATATCAGATCGAGCTGCGAAATCTGAAGCACAGCTAAAA
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gtaagtgaaatatatcttttcttctagttttaagctgctaccgagttgctcgtggt-agatttgtacaagttcttcagcggtg-aattttattgatttgttgaatattgtctttttttgcagGGAGAAATGCAGCAACTCCGGGACAAACTTGCTATTGCAGAAAGGGCTGCAAGATCAGAAGCTCAACTGAAA
upper sequence: AT1G68060.1 (Arabidopsis thaliana), 3'ss of exon 7
lower sequence: GLYMA08G05100.1 (Glycine max), 3'ss of exon 7
--------------------------gtttactttgatatgattgcccttttcctaaatttgtggaatccagattctttgaagtgacaaaggcacacaac--cttacattctcactctttaactctcttcttgcagGGAGAAATGCAGCAACTCCGCGATAAGCTTGCCATATCAGATCGAGCTGCGAAATCTGAAGCACAGCTAAAA
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gtggatatcatttctgattcctttggatttaatcttttgtgcctttttttttataaaaa--aaagtatatatcttcttgcatttggtttcccttcaatacggtttccatttttttaccaaactacacttttattagGGAGAGATGCAGCAACTTCGGGACAAGCTTGCTATAACTGAGCGAACTGCAAAGTCTGAAGCACAGTTAAAA
upper sequence: AT1G68060.1 (Arabidopsis thaliana), 3'ss of exon 7
lower sequence: Vv01s0011g05790.t01 (Vitis vinifera), 3'ss of exon 7
-----------------------gttt---actttga--tatgattgcccttttcctaaatttgtggaatccagattct--ttgaagtgacaaaggcacacaaccttacattctcactctttaactctcttcttgcagGGAGAAATGCAGCAACTCCGCGATAAGCTTGCCATATCAGATCGAGCTGCGAAATCTGAAGCACAGCTAAAA
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gtaaatactctgaagttcttattgtttcaaaacttgagctattatttactgtttctt---tttctttgatcatgactgtgtttggcttttgtagtttccacagtttgtaattgttac---caaaacctcttgttacagGGGGAAATGCAGCAACTCAGGGACAAGCTTGCTATAACGGAAAGAACTGCAAAATCTGAAGCACAATTGAAAMapped 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|47831253|gb|CK120937.1|CK120937EST: ATAAAGTGATGCCTGTGAAGCAATGGCTTGAAGAAAGAAGGTTTCTACAG GGAGAAATGCAGCAACTCCGCGATAAGCTTGCCATATCAGATCGAGCTGCG
genomic: ATAAAGTGATGCCTGTGAAGCAATGGCTTGAAGAAAGAAGGTTTCTACAGgtttactttg ... cttcttgcagGGAGAAATGCAGCAACTCCGCGATAAGCTTGCCATATCAGATCGAGCTGCG
atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.gaagtgacaaaggcacacaaccttacattctcactctttaactctcttcttgcagGGAGAAATGCAGCAACTCCGCGATAAGCTTGCCATATCAGATCGAGCTGCGAAATCTGAAGCACAGCTAAAA
ttctcactctttaact CT-rich tract
ttacatt 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gtttactttgatatgattgcccttttcctaaatttgtggaatccagattctttgaagtgacaaaggcacacaaccttacattctcactctttaactctcttcttgcagGGAGAAATGCAGCAACTCCGCGATAAGCTTGCCATATCAGATCGAGCTGCGAAATCTGAAGCACAGCTAAAA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGCTGC
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - CTGAAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TGAAGC