Sequence
atgc intronic sequence ATGC exonic sequence...tgcttagctggtcgcattatatgtagctcctttaaaagttaatttgaatgacaagaatatagttgttacaacttgcagtttttgttttgacacttttcagATTGATCCTGCTTCAGCTGGTGTTCAGTATGATAAAGAGTTTATTGTATGCTCTCTCGACTTGCTGTCTGGACTTGCAGAAGGTCTTGGTAGTGGGATAG
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: Vv03s0038g02830.t01 (Vitis vinifera), 3'ss of exon 19
lower sequence: GRMZM2G376731_T01 (Zea mays), 3'ss of exon 19
-tgcttagctggtcgcattatatgtagctccttta-aaagttaatttgaatg-acaaga-atatagttgttacaacttgcagtttttgttttgacacttttcagATTGATCCTGCTTCAGCTGGTGTTCAGTATGATAAAGAGTTTATTGTATGCTCTCTCGACTTGCTGTCTGGACTTGCAGAAGGTCTTGGTAGTGGGATAG
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aaggccacctgaaaaaacaacaaatatgacaactacaaggtcaaatcacatatacgactcatacattttctgttctttgtgatctccttc----caatgtgcagATTGATCCTACTGCAGCTGGTGCGGTGTATGATAGAGAATTCATTGTTTGTTCGTTGGACCTACTGTCTGGACTTGCAGAAGGTCTTGGCGCTGGTATTG
upper sequence: Vv03s0038g02830.t01 (Vitis vinifera), 3'ss of exon 19
lower sequence: GLYMA10G42960.1 (Glycine max), 3'ss of exon 19
----tgcttagctggtcgcattatatgtagctcctttaaaagttaatttgaatgacaagaatatagttgttacaacttgcagtttttgtttt-------------------gacact---tttcagATTGATCCTGCTTCAGCT---GGTGTTCAGTATGATAAAGAGTTTATTGTATGCTCTCTCGACTTGCTGTCTGGACTTGCAGAAGGTCTTGGTAGTGGGATAG
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gttctggttactt--ttgcattatttatgatttgtctagcagactactgtattaccacgtaccaaaagggtctgattttgaggttttattttatcttccaacaagttgagtgtcattctatttcagGCTGATCCTGCCGCCACCACAGGGGTTCAGTATGACAAGGAGTTTATTGTATGCTCTCTTGATTTGCTTTCTGGACTAGCAGAGGGTCTTGGCAGTGGGA---
upper sequence: Vv03s0038g02830.t01 (Vitis vinifera), 3'ss of exon 19
lower sequence: GLYMA20G24040.1 (Glycine max), 3'ss of exon 19
tgcttagctggtcgcattat--atgtagctcctttaaaagttaatttgaatgacaagaatatagttgttacaacttgcagtttttgttttgacacttttcagATTGATCCTGCTTCAGCT---GGTGTTCAGTATGATAAAGAGTTTATTGTATGCTCTCTCGACTTGCTGTCTGGACTTGCAGAAGGTCTTGGTAGTGGGATAG
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-gtctaacagactactgtattaccgctttccacttaccaataggggctgtttttgagattttattttat-cttccaacaagttgagtgtcattctatttcagGCTGATCCTGCCGCCACCACAGGGGTTCAGTATGACAAGGAGTTTATTGTATGCTCTCTTGATTTGCTTTCTGGACTAGCAGAGGGTCTTGGCAGTGGAA---
upper sequence: Vv03s0038g02830.t01 (Vitis vinifera), 3'ss of exon 19
lower sequence: AT2G16950.1 (Arabidopsis thaliana), 3'ss of exon 19
------------------------------------tgcttagctggtcgcattatatgtagctcctttaaaagtt--aatttgaatgacaagaatatagtt---gttacaacttg--cagtttttgttttgacacttttcagATTGATCCTGCTTCAGCTGGTGTTCAGTATGATAAAGAGTTTATTGTATGCTCTCTCGACTTGCTGTCTGGACTTGCAGAAGGTCTTGGTAGTGGGATAG
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gttccattcagaattctgcaatttcatctcatttaagatttagagtgacttttccagttttccttcgtcgcaggcttgcatgtacataactattgcatgcttttgttttccgtttgatcaaagttcgtttctgttgtttgtagGTTAATCCTGCTTCTGCTGGGGCTCAGTATGACAGAGAATTTATTGTTTGTTCTCTTGATTTGCTTTCTGGACTTGCTGAAGGGCTTGGCAGTGGGATAGMapped 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|34550426|gb|CF518644.1|CF518644EST: CCGTCTTTCAGAGGTGCATAAACATCATCCAGACACAACAATTGGCAAAG ATTGATCCTGCTTCAGCTGGTGTTCAGTATGATAAAGAGTTTATTGTATGC
genomic: CCGTCTTTCAGAGGTGCATAAACATCATCCAGACACAACAATTGGCAAAGgtttctatat ... cacttttcagATTGATCCTGCTTCAGCTGGTGTTCAGTATGATAAAGAGTTTATTGTATGC
atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.gaatgacaagaatatagttgttacaacttgcagtttttgttttgacacttttcagATTGATCCTGCTTCAGCTGGTGTTCAGTATGATAAAGAGTTTATTGTATGCTCTCTCGACTTGCTGTCTGGACTTGCAGAAGGTCTTGGTAGTGGGATAG
ttttgac putative branch site (score: 3)
cacttttc CT-rich tract
tttttgtttt 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
tgcttagctggtcgcattatatgtagctcctttaaaagttaatttgaatgacaagaatatagttgttacaacttgcagtttttgttttgacacttttcagATTGATCCTGCTTCAGCTGGTGTTCAGTATGATAAAGAGTTTATTGTATGCTCTCTCGACTTGCTGTCTGGACTTGCAGAAGGTCTTGGTAGTGGGATAG
tgcttag
- - - - - - - - - - -tgtagct
- - - - - - - - - - - - - - - - - - - - - - - - - acaagaa
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - acttgca