Sequence
atgc intronic sequence ATGC exonic sequence...atttaaaactggcttttacatatggtttgtaaattgttagtttctgttggttgccaaatctgtgtgctcacttgtttttcggccttcttttgttgtttagCACAGTGAACAAGGATGGATTTAAACCAAATCTTGAGACTCACCTAATTCCATTACTCGCAACAAAACTTGAGGAAGCATCTTCAGAGTCCAAAGAGAAA
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: Vv13s0106g00700.t01 (Vitis vinifera), 3'ss of exon 4
lower sequence: GLYMA20G32790.1 (Glycine max), 3'ss of exon 2
---atttaaaactggctt-ttacatatggtttgtaaattgttagtttctgttggttgccaaatctgtgtgctcacttgtttttcggccttcttttgttgtttagCACAGTGAACAAGGATGGATTTAAACCAAATCTTGAGACTCACCTAATTCCATTACTCGCAACAAAACTTGAGGAAGCATCTTCAGAGTCCAAAGAGAAA
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ttcttccattacttctttgtcatataccggtgttctgccacagaaacatgcaagctaccag---cagattct-atctccctctcttatttgttttattgtttagCACAGTGAACCAGGATGGGTTTAAACCAAATCTAGAGACTCATCTTCATCCTTTACTCTCAATGAAGCCTGAGGACACTTCTTTGGAATCCAACTCCAAG
upper sequence: Vv13s0106g00700.t01 (Vitis vinifera), 3'ss of exon 4
lower sequence: GLYMA10G34800.1 (Glycine max), 3'ss of exon 2
atttaaaactggcttttacatatggtttgtaaattgtta---gtttctgttggttgcca--aatctgtgtgctcacttgtttttcggccttcttttgttgtttagCACAGTGAACAAGGATGGATTTAAACCAAATCTTGAGACTCACCTAATTCCATTACTCGCAACAAAACTTGAGGAAGCATCTTCAGAGTCCAAAGAGAAA
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-tccattactttctttgtcatatg-ccagtgttctgccacagaaacatgcaagctaccagcagattctatcaccctctcttatttgg---tggtttattgtttagCACAGTGAACCTGGATGGTTTTAAACCAAATCTAGAGACTCATCTTCTTCCTTTACTCTCAATGAAACCTGAGGACACTTCTTTGGAATCCAACTCCAAG
upper sequence: Vv13s0106g00700.t01 (Vitis vinifera), 3'ss of exon 4
lower sequence: AT5G04710.1 (Arabidopsis thaliana), 3'ss of exon 3
atttaaaactggcttttacatatggtttgtaaattgttagtttc---tgttggttgccaaat----ctgtgt------gctcacttgt---ttttcggccttcttttgttgtttagCACAGTGAACAAGGATGGATTTAAACCAAATCTTGAGACTCACCTAATTCCATTACTCGCAACAAAACTTGAGGAAGCATCTTCAGAGTCCAAAGAGAAA
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--gtaaatttctttcatgagcttgtctagtgaagttttaggctaatgcatttgccatcaagtggagttatgttttgaagctcattcatgctgttttgttcttcgtgtattgtttagCACAGTGAACAGTGATGGATTTAAACCAAATTTGGAGACCCAACTTGTTCCGCTACTGGCAACAAAATCAGATGAATCCTCAGCAGAGTCCAAGGACAAAMapped 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|161710137|gb|FC061035.1|FC061035EST: TTCACCTTGGACCG CACAGTGAACAAGGATGGATTTAAACCAAATCTTGAGACTCACCTAATTC
genomic: TTCACCTT-GACCGgtttgttgct ... tgttgtttagCACAGTGAACAAGGATGGATTTAAACCAAATCTTGAGACTCACCTAATTC
EST:
gi|161710142|gb|FC061040.1|FC061040EST: TTCACCTTGACCG CACAGTGAACAAGGATGGATTTAAACCAAATCTTGAGACTCACCTAATTCC
genomic: TTCACCTTGACCGgtttgttgct ... tgttgtttagCACAGTGAACAAGGATGGATTTAAACCAAATCTTGAGACTCACCTAATTCC
atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.gttggttgccaaatctgtgtgctcacttgtttttcggccttcttttgttgtttagCACAGTGAACAAGGATGGATTTAAACCAAATCTTGAGACTCACCTAATTCCATTACTCGCAACAAAACTTGAGGAAGCATCTTCAGAGTCCAAAGAGAAA
tgctcac putative branch site (score: 2)
cttgtttttcggcctt CT-rich tract
ttgttttt 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
atttaaaactggcttttacatatggtttgtaaattgttagtttctgttggttgccaaatctgtgtgctcacttgtttttcggccttcttttgttgtttagCACAGTGAACAAGGATGGATTTAAACCAAATCTTGAGACTCACCTAATTCCATTACTCGCAACAAAACTTGAGGAAGCATCTTCAGAGTCCAAAGAGAAA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGAGA
- - aaaactg
- - - - - - - - - - - tggtttg
- - - - - - - - - - - - - - - - - - - - - -ctgttgg
- - - - - - - - - - - - - - - - - - - - - - - - - - -ccaaatc
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - tgctcac