Sequence
atgc intronic sequence ATGC exonic sequence...ttgggacgtgcttttagctttaatgaaaagatttatattaaaaagaaattggaagggaagaaagttctaatcaactcatttggatggatcattggttcagGTATGATTGGTTGGCAAAGAAGAGTCTCCGAGCAGGATACTTTGTGTGGGCCATGACTGCTTATGGTCTAG
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: Vv15s0046g02460.t01 (Vitis vinifera), 3'ss of exon 11
lower sequence: GLYMA18G46760.1 (Glycine max), 3'ss of exon 11
------------------------------ttgggacgtgcttttagctttaatgaaaagattt-atattaa-aaagaaattg------gaagggaagaaagttct--aatcaactcatttggatggatcattg-gttcagGTATGATTGGTTGGCAAAGAAGAGTCTCCGAGCAGGATACTTTGTGTGGGCCATGACTGCTTATGGTCTAG
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gttgaatagaaaatcatacataaatgatcctattcatcatcttgtactccttacaaaaacattttggattgatgaagacaatgctttgtgcctagttaatggttcatgaacttgatttttctaatgactaactatatacagGTATGATTGGTTGGCAAAGAAGAACCTTCGAGATGGGTACTTCTTGTGGGCAATGACTGCTTATGGTTTAG
upper sequence: Vv15s0046g02460.t01 (Vitis vinifera), 3'ss of exon 11
lower sequence: GLYMA03G01100.1 (Glycine max), 3'ss of exon 11
--------------------------------------------------------------------------------ttgggacgtgcttttagctttaatgaaaagatttatattaaaaagaaattggaaggga-----agaaagtt-----ctaatcaactcatttggatggatcattggtt---cagGTATGATTGGTTGGCAAAGAAGAGTCTCCGAGCAGGATACTTTGTGTGGGCCATGACTGCTTATGGTCTAG
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gtagaattggaagtcataatacatacctctcctactcatcttcgacttccttgtattactgattttttggtgatagaatacctgaccacattgtttcctt--gtaaaatgttttagat-agatggaaagggtaatggtctttcatcatgttaacagttcatggacttattct-attgataactaactttacagGTATGATTGGTTGGCAAAGAAGAACCTTCGGGCTGGATACTTCTTGTGGGCAATGACTGCCTACGGTTTAG
upper sequence: Vv15s0046g02460.t01 (Vitis vinifera), 3'ss of exon 11
lower sequence: GLYMA07G07610.1 (Glycine max), 3'ss of exon 12
--------------------------------------------------------------------------ttgggacgtgcttttagctttaatgaaaagatttatat---taaaaagaaattggaagggaagaaagtt-----ctaatcaactcatttggatggatcattggtt---cagGTATGATTGGTTGGCAAAGAAGAGTCTCCGAGCAGGATACTTTGTGTGGGCCATGACTGCTTATGGTCTAG
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gtagaattggaagtcataatacatcctctcctactcatcttccttgcattactgatttttttggtgatagaatacttgaccacattatttcctt--gtaaaatgttttaaatagatggataagtaatgctcttttatcatgttaacagttaatgaacttactct-attcataactaactttacagGTATGATTGGTTGGCAAAGAAGAACCTTCGGGCTGGATACTTCTTGTGGGCAATGTCTGCCTATGGTTTAG
upper sequence: Vv15s0046g02460.t01 (Vitis vinifera), 3'ss of exon 11
lower sequence: GLYMA09G39500.1 (Glycine max), 3'ss of exon 11
------------------------------ttgggacgtgcttttagctttaatgaaaagatttat------attaaaaagaaattggaagggaagaaagtt-ctaatcaactcatttggatggatcattg--gttcagGTATGATTGGTTGGCAAAGAAGAGTCTCCGAGCAGGATACTTTGTGTGGGCCATGACTGCTTATGGTCTAG
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gttgaatagaaactcatacataaggaatcctattcatcatcttgtactccttataaaaacatttttggattgatgtagacaatcctttatgccaagtgaatggttcatgaacttgatttttctaatgataactatacagGTATGATTGGTTGGCAAAGAAGAACCTTCGAGATGGGTACTTCTTGTGGGCAATGACCGCTTATGGTTTAGMapped 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|110401255|gb|EC967858.1|EC967858EST: GGATTTGGTGATATTATCTTACCGGGACTGCTTGTGGCATTCTCACTAAG GTATGATTGGTTGGCAAAGAAGAGTCTCCGAGCAGGATACTTTGTGTGGGC
genomic: GGATTTGGTGATATTATCTTACCGGGACTGCTTGTGGCATTCTCACTAAGgtttgatcac ... attggttcagGTATGATTGGTTGGCAAAGAAGAGTCTCCGAGCAGGATACTTTGTGTGGGC
EST:
gi|110369217|gb|EC933370.1|EC933370EST: GGATTTGGTGATATTATCTTACCGGGACTGCTTGTGGCATTCTCACTAAG GTATGATTGGTTGGCAAAGAAGAGTCTCCGAGCAGGATACTTTGTGTGGGC
genomic: GGATTTGGTGATATTATCTTACCGGGACTGCTTGTGGCATTCTCACTAAGgtttgatcac ... attggttcagGTATGATTGGTTGGCAAAGAAGAGTCTCCGAGCAGGATACTTTGTGTGGGC
atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.aaattggaagggaagaaagttctaatcaactcatttggatggatcattggttcagGTATGATTGGTTGGCAAAGAAGAGTCTCCGAGCAGGATACTTTGTGTGGGCCATGACTGCTTATGGTCTAG
ttctaat putative branch site (score: 2)
ttctaat 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
ttgggacgtgcttttagctttaatgaaaagatttatattaaaaagaaattggaagggaagaaagttctaatcaactcatttggatggatcattggttcagGTATGATTGGTTGGCAAAGAAGAGTCTCCGAGCAGGATACTTTGTGTGGGCCATGACTGCTTATGGTCTAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GAGCAG
- - gacgtgc
- - - - - - - - - - - - gaaaaga
- - - - - - - - - - - - - - - - - - - - -aaagaaa
- - - - - - - - - - - - - - - - - - - - - - - - - - - -ggaagaa