Sequence
atgc intronic sequence ATGC exonic sequencegtgagtgtagtttcactgttatcagcaattatttgatacacacgtatgggtcagttttgagttttaattatttatatctatgtgccacagGGGATTAAATTCATTAAACATTCCTCTGTCAGTAGAGACTGTCTGTGTCTTCACTGCACCTGTATTTTCAGCTTTTGCATCCTGGGCAACTTACCTTTTG
Basic information
species | Arabidopsis thaliana |
transcript | AT5G19690.1 |
intron # | 4 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: AT5G19690.1 (Arabidopsis thaliana), 3'ss of exon 4
lower sequence: LOC_Os05g44360.1 (Oryza sativa), 3'ss of exon 4
gtgagtgtagtttcactgttatcagcaattatttgatacacacgtatgggtcagttttgagttttaattatttatatctatgtgccacagGGGATTAAATTCATTAAACATTCCTCTGTCAGTAGAGACTGTCTGTGTCTTCACTGCACCTGTATTTTCAGCTTTTGCATCCTGGGCAACTTACCTTTTG
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----gtatgttatcaaaggaa--agcacttgtctgttcctcattaatgctgtggatgtg--cctaaaatatttgattg---gttttgcagGTTGCTAAATTCTCTAAACATTCCGTTGTCAGTGGAGACTGTTTGTGTGTTCACTGCTCCAATATTCTCAGCAAACGCTTCCTGGGCTACTTACCTTTTA
upper sequence: AT5G19690.1 (Arabidopsis thaliana), 3'ss of exon 4
lower sequence: GLYMA01G01270.1 (Glycine max), 3'ss of exon 4
--------------------------------------gtgagtgtagtttcactgttatcagcaattatttgatacacacgtatgggtcagttttgagttttaattatttat--------------atctatgtgcca---------------cagGGGATTAAATTCATTAAACATTCCTCTGTCAGTAGAGACTGTCTGTGTCTTCACTGCACCTGTATTTTCAGCTTTTGCATCCTGGGCAACTTACCTTTTG
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gtaggcatttgaaacacagtaatgttggttgtcatatgctgtgatttttctcttcattttatactaatattaaatatccatgcaagcatttgttttgaagtttatcagtttatctaaggtggttgatatttttggaccattcccttcttggtttcagGGTACTGAATTCCCTAAACATACCTCTCTCAGTTGAAACTGTTTGTGTGTTTACTGCACCTATATTCTCAGCCTTTGCTTCATGGGCAACTTATCTTCTG
upper sequence: AT5G19690.1 (Arabidopsis thaliana), 3'ss of exon 4
lower sequence: GLYMA16G08410.1 (Glycine max), 3'ss of exon 4
----------------------------------------gtgagtgtagtttcactgttatcagcaat--tatttgatacacacgtatgggtcagttttgagttttaatta------tttatatctatgtgcca--------------cagGGGATTAAATTCATTAAACATTCCTCTGTCAGTAGAGACTGTCTGTGTCTTCACTGCACCTGTATTTTCAGCTTTTGCATCCTGGGCAACTTACCTTTTG
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gtaggcatttgaaacacagtaatgttggttgtcatatgctgtgatttttctcttcattttat-agtaataatattaaatatccatgcaagcaattgttttgaagtttatctaaggtgtttggtatttttggacctttcccttctggtttcagGATACTGAATTCCATTAACATACCTCTCTCAGTTGAAACTGTTTGTGTGTTTACTGCACCTATATTCTCTGCCTTTGCTTCATGGGCAACTTATCTTCTGMapped 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|164080409|gb|ES181529.1|ES181529EST: GGAGGAACTGTTTACCCTGGGTTAACTTTGACTGCTGGAACCATCTGGTG GGGATTAAATTCA
genomic: GGAGGAACTGTTTACCCTGGGTTAACTTTGACTGCTGGAACCATCTGGTGgtgagtgtag ... tgtgccacagGGGATTAAATTCA
EST:
gi|86067003|gb|DR362760.1|DR362760EST: GGAGGAACTGTTTACCCTGGGTTAACTTTGACTGCTGGAACCATCTGGTG GGGATTAAATTCATTAAACATTCCTCTGTCAGTAGAGACTGTCTGTGTSTT
genomic: GGAGGAACTGTTTACCCTGGGTTAACTTTGACTGCTGGAACCATCTGGTGgtgagtgtag ... tgtgccacagGGGATTAAATTCATTAAACATTCCTCTGTCAGTAGAGACTGTCTGTGTCTT
EST:
gi|164142459|gb|ES201209.1|ES201209EST: GTTTACCCTGGGTTAACTTTGACTGCTGGAACCATCTGGTG GGGATTAAATTCATTAAACATTCCTCTGTCAGTAGAGACTAGTCTGTGTCT
genomic: GTTTACCCTGGGTTAACTTTGACTGCTGGAACCATCTGGTGgtgagtgtag ... tgtgccacagGGGATTAAATTCATTAAACATTCCTCTGTCAGTAGAGACT-GTCTGTGTCT
atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.atacacacgtatgggtcagttttgagttttaattatttatatctatgtgccacagGGGATTAAATTCATTAAACATTCCTCTGTCAGTAGAGACTGTCTGTGTCTTCACTGCACCTGTATTTTCAGCTTTTGCATCCTGGGCAACTTACCTTTTG
ttttaat putative branch site (score: 3)
agttttgagttttaat 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gtgagtgtagtttcactgttatcagcaattatttgatacacacgtatgggtcagttttgagttttaattatttatatctatgtgccacagGGGATTAAATTCATTAAACATTCCTCTGTCAGTAGAGACTGTCTGTGTCTTCACTGCACCTGTATTTTCAGCTTTTGCATCCTGGGCAACTTACCTTTTG
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