Sequence
atgc intronic sequence ATGC exonic sequencegttgaccatttctacaattctgacttggtattgtttgtatttacattgtattagtccccatcttttgacttgaatatgcagATGGTTCCTGACATTGCATTTGGTAACCACACCCGAGTTGTCTTGGACATTGGTTGTGGAGTGGCCAGTTTTGGTGCCTTTTTGCTGCAACGTAATGTGA
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: Vv18s0001g01600.t01 (Vitis vinifera), 3'ss of exon 2
lower sequence: GRMZM2G042295_T01 (Zea mays), 3'ss of exon 2
-------gttgaccatttctacaattctgacttggtattgtttgtatttacattgtattagtccccatcttttgacttgaatatgcagATGGTTCCTGACATTGCATTTGGTAACCACACCCGAGTTGTCTTGGACATTGGTTGTGGAGTGGCCAGTTTTGGTGCCTTTTTGCTGCAACGTAATGTGA
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gtttgatgtcaaacattcttcaaact---gcttgaaatt--taatcacgactctgactagagccacctgtttccctctgctcatccagATGGTACCAAATGTTGCATTTGGATCTCATACTAGAGTTGTCCTGGATGTTGGTTGTGGAGTAGCAAGTTTTGGTGCCTATTTACTTTCACGTGATGTCC
upper sequence: Vv18s0001g01600.t01 (Vitis vinifera), 3'ss of exon 2
lower sequence: GLYMA13G09520.1 (Glycine max), 3'ss of exon 2
gttgaccatttctacaattctgacttggtattgtttgtatttacattgtattagtccccatcttttgacttgaatatgcagATGGTTCCTGACATTGCATTTGGTAACCACACCCGAGTTGTCTTGGACATTGGTTGTGGAGTGGCCAGTTTTGGTGCCTTTTTGCTGCAACGTAATGTGA
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---gttagtctcttcaaattcattctgatatttgttgc-taaatatactgcgagctaa----tttgaaattgaatgtacagATGGTTCCTGAAATTGCATTTGGTCACAACACCAGAGTTGCTTTAGACGTTGGCTGTGGAGTGGCAAGTTTTGGTGCCTTTTTGATGCAACGTAATGTGA
upper sequence: Vv18s0001g01600.t01 (Vitis vinifera), 3'ss of exon 2
lower sequence: GLYMA14G24900.1 (Glycine max), 3'ss of exon 2
gttgaccatttctacaattctgacttggtattgtttgtatttacattgtattagtccccatcttttgacttgaatatgcagATGGTTCCTGACATTGCATTTGGTAACCACACCCGAGTTGTCTTGGACATTGGTTGTGGAGTGGCCAGTTTTGGTGCCTTTTTGCTGCAACGTAATGTGA
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gttagtctcttatttaaattcgttctgatatttgttgc-----taacatactgagagctat-tttgaaattgaatgtgcagATGGTTCCTGAAATTGCATTTGGTCGCAACACCAGGGTTGCTTTAGACGTTGGCTGTGGAGTGGCAAGTTTTGGTGCTTTTTTGATGCAACGTAATGTGA
upper sequence: Vv18s0001g01600.t01 (Vitis vinifera), 3'ss of exon 2
lower sequence: AT1G77260.1 (Arabidopsis thaliana), 3'ss of exon 2
--------gttgaccatttctacaattctgacttg-gtattg-----tttgtatttacattgtattagtccc-catctttt--gacttgaatatgcagATGGTTCCTGACATTGCATTTGGTAACCACACCCGAGTTGTCTTGGACATTGGTTGTGGAGTGGCCAGTTTTGGTGCCTTTTTGCTGCAACGTAATGTGA
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gtttgttttttgattcttcctacctgtttttttggtgtattggctaatctgttttttt-ttgtgttgatcttatattctcttagattgaaatttgcagATGATTCCTGATATTACATTTGGATCACGCACCCGTGTTGCTTTGGACATTGGCTGTGGTGTGGCGAGCTTTGGTGCGTTTTTGATGCAGCGTAACACGAMapped 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|37187347|gb|CF606700.1|CF606700EST: GAACACAATTTATTCATGGAGCAGATCAATACTTGGATCAGATTTCACAG ATGGTTCCTGACATTGCATTTGGTAACCACACCCGAGTTGTCTTGGACATT
genomic: GAACACAATTTATTCATGGAGCAGATCAATACTTGGATCAGATTTCACAGgttgaccatt ... gaatatgcagATGGTTCCTGACATTGCATTTGGTAACCACACCCGAGTTGTCTTGGACATT
atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.ggtattgtttgtatttacattgtattagtccccatcttttgacttgaatatgcagATGGTTCCTGACATTGCATTTGGTAACCACACCCGAGTTGTCTTGGACATTGGTTGTGGAGTGGCCAGTTTTGGTGCCTTTTTGCTGCAACGTAATGTGA
ttttgac putative branch site (score: 3)
tatttacattgtatta 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 |
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gttgaccatttctacaattctgacttggtattgtttgtatttacattgtattagtccccatcttttgacttgaatatgcagATGGTTCCTGACATTGCATTTGGTAACCACACCCGAGTTGTCTTGGACATTGGTTGTGGAGTGGCCAGTTTTGGTGCCTTTTTGCTGCAACGTAATGTGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GTGGAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TGCTGC