Sequence
atgc intronic sequence ATGC exonic sequence...gttgaaaggaaggggactatttctttggttaattgatggctttttcatagtctatttccttattgagatggtggttgctaatgtcattgtgtctttacagGGAATCATAAGAGGCTGATTACATCTCCGCCAGTTGCCGTCTTTCCTCACCCCCTTGCAAGTGATCTTAGTTTTTCAAG
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: Vv11s0016g03130.t01 (Vitis vinifera), 3'ss of exon 9
lower sequence: GLYMA08G03760.1 (Glycine max), 3'ss of exon 9
-gttgaaaggaaggggactatttctttggttaattgatggctttttcatagtctatttccttattgagatggtggttgctaatgtcattgtgtctt-tacagGGAATCATAAGAGGCTGATTACATCTCCGCCAGTTGCCGTCTTTCCTCACCCCCTTGCAAGTGATCTTAGTTTTTCAAG
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aattttattactagctcagcttaataagactactaaacagaagtttcctaaaagaataag--agtcctaatattcttacaattattacaacgtatcatacagGTGCTCACAAAAGGCTCATTACCTCTCCTCCCGTTGCCGTCTTTCCCCACCCCCTTGCAAGTGATCTTAATTTTGGAAG
upper sequence: Vv11s0016g03130.t01 (Vitis vinifera), 3'ss of exon 9
lower sequence: GLYMA05G35860.1 (Glycine max), 3'ss of exon 8
--gttgaaaggaaggggacta---tttctttggttaattgatggctttttcatagtctatttccttattgagatggtggttgctaatgtcattgtgtctttacagGGAATCATAAGAGGCTGATTACATCTCCGCCAGTTGCCGTCTTTCCTCACCCCCTTGCAAGTGATCTTAGTTTTTCAAG
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cagcttaatagtactgcagtgaattttattagcttaacaagaagtttcctaaaagaatgaagtcctaatattctaacaattatta----caatgtatcat-acagGTGCTCACAAAAGGCTCATTACTTCTCCTCCTGTTGCTGTCTTTCCTCACCCCCTTGCCAGTGATCTTAATTTTGGAAG
upper sequence: Vv11s0016g03130.t01 (Vitis vinifera), 3'ss of exon 9
lower sequence: GLYMA01G01130.1 (Glycine max), 3'ss of exon 8
---------------------------------------------------------------------gttgaaaggaaggggact--atttctttg----gttaattgatggctttttcatagtctat--ttccttattgagatggtggttgctaatgtcattgtgtctt-tacagGGAATCATAAGAGGCTGATTACATCTCCGCCAGTTGCCGTCTTTCCTCACCCCCTTGCAAGTGATCTTAGTTTTTCAAG
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gtatatctgatactcatcaatcttttaaattcacactttgaaaatcaatgatgcaacagctttgccagcattcaactagcatagacttagtctttttgcaatatatattcaatgttttttcttggtcgttcattcctctttattatgttttctattgccatgatactgtcacattcagGGGCTCACAAAAAGCTCATTAGTTCTCCTGCGGTTGCCGTCTTTCCTCATCCCCTTGCAAGTGATCTTAATTTTGGAAG
upper sequence: Vv11s0016g03130.t01 (Vitis vinifera), 3'ss of exon 9
lower sequence: GLYMA16G08510.1 (Glycine max), 3'ss of exon 8
------------------------------------------------------------------------gttgaaaggaaggggactatttctttggtta-----attgatggctttttcatagtc--tatttccttattgagatggtggttgctaatgtcattgtgtc-tttacagGGAATCATAAGAGGCTGATTACATCTCCGCCAGTTGCCGTCTTTCCTCACCCCCTTGCAAGTGATCTTAGTTTTTCAAG
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gtatatctttgatactcaacaatcttttaaattcacactttgagaattaatgatgctacagctttgctagcattcaactagcatagacttagtcttttcgcaatatatattcaatgttttttcttggtcattcattcctgtttattatggcgttcattgccatgatactgttacgttcagGGGCTCACAAAAAGCTCATTAGTTCTCCAGCGGTTGCTGTCTATCCTCACCCCCTTGCAAGTGATCTTAATTTTGGAAG
upper sequence: Vv11s0016g03130.t01 (Vitis vinifera), 3'ss of exon 9
lower sequence: AT2G19880.1 (Arabidopsis thaliana), 3'ss of exon 9
gttgaaaggaaggggactatttctttggttaattgatggctttttcatagtctatttccttattgagatggtggttgctaatgtcattgtgtctttacagGGAATCATAAGAGGCTGATTACATCTCCGCCAGTTGCCGTCTTTCCTCACCCCCTTGCAAGTGATCTTAGTTTTTCAAG
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-------------gtaacatttgcttca--aatttccctccaacttatagttgacagttttttcatg-------tttccacttaccttct-tctttccagGTGCTCATAAGAGGCTCATTACATCTCCTCCTGTTGCTGTTTTCCCTCACCCTCTCGCGAGTGATCTAAGTTTTGGACGMapped 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|294965468|gb|GW839039.1|GW839039EST: ACTTCGAGACGGTGGATACTCTGATGACATGACTCTTGCAGCAATTGCTG GGAATCATAAGAGGCTGATTACATCTCCGCCAGTTGCCGTCTTTCCTCACC
genomic: ACTTCGAGACGGTGGATACTCTGATGACATGACTCTTGCAGCAATTGCTGgtaatgcttt ... gtctttacagGGAATCATAAGAGGCTGATTACATCTCCGCCAGTTGCCGTCTTTCCTCACC
atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.catagtctatttccttattgagatggtggttgctaatgtcattgtgtctttacagGGAATCATAAGAGGCTGATTACATCTCCGCCAGTTGCCGTCTTTCCTCACCCCCTTGCAAGTGATCTTAGTTTTTCAAG
tgctaat putative branch site (score: 2)
tgtcttt putative PPT
tctattt 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gttgaaaggaaggggactatttctttggttaattgatggctttttcatagtctatttccttattgagatggtggttgctaatgtcattgtgtctttacagGGAATCATAAGAGGCTGATTACATCTCCGCCAGTTGCCGTCTTTCCTCACCCCCTTGCAAGTGATCTTAGTTTTTCAAG
- - aaaggaa
- - - - - - - - - - - - - - - - - gatggct
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -ggtggtt
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - gctaatg