Sequence
atgc intronic sequence ATGC exonic sequence...actaaatacttatatatataaaaaaaagataatgctttactaaatgcttttcctaatgtccattatttgtgatatgtgatttattgttccatatttgcagCTTTGCTTGTTGAAAATGGGAAATTTCTTCTGTCTGCAAAACGAAACAGGAGAACTACTTGCACAGAATATGTAATCTCCATGGATGCCGATAACATATC
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: Vv18s0072g00630.t01 (Vitis vinifera), 3'ss of exon 2
lower sequence: GLYMA10G36940.1 (Glycine max), 3'ss of exon 3
actaaatact-tatatatataaa---aaaaagataatgctttactaaatgcttttcctaatgtccattatttgtgatatgtgatttattgttccatatttgcagCTTTGCTTGTTGAAAATGGGAAATTTCTTCTGTCTGCAAAACGAAACAGGAGAACTACTTGCACAGAATATGTAATCTCCATGGATGCCGATAACATATC
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actatatgctgtataattatgcatctggcaattttatgttcctgtcagtcattgtctttgggacc--tgttttggactcataagtca--gttctgctcctgcagCCTTGCTTGTTGAAAATGGAAAGTTTCTTCTCTCTGCAAAACGGACAAGAAGAACAACTTGCACAGAGTATGTTATATCAATGGATGCAGATAACATATC
upper sequence: Vv18s0072g00630.t01 (Vitis vinifera), 3'ss of exon 2
lower sequence: GLYMA20G30660.1 (Glycine max), 3'ss of exon 3
actaaatact-tatatatataaa---aaaaagataatgctttactaaatgcttttcctaatgtccattatttgtgatatgtgatttattgttccatatttgcagCTTTGCTTGTTGAAAATGGGAAATTTCTTCTGTCTGCAAAACGAAACAGGAGAACTACTTGCACAGAATATGTAATCTCCATGGATGCCGATAACATATC
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actatatgctgtataattatgcatttggcaattttatgttcctgcaagttgttgtcttttggacc--tgttttggactcataagtc--tgttctgctcctgcagCCTTGCTTGTTGAAAATGGAAAGTTTCTTCTCTCTGCAAAACGGACAAGAAGAACAACTTGCACAGAGTATATTATATCAATGGATGCAGATAACATATC
upper sequence: Vv18s0072g00630.t01 (Vitis vinifera), 3'ss of exon 2
lower sequence: GLYMA02G09030.3 (Glycine max), 3'ss of exon 3
--actaaatacttatatatataaaaaaaagataatg-ctttactaaatgcttttcctaatgtccattatttgtgatatgtgatttattgttccatatttgcagCTTTGCTTGTTGAAAATGGGAAATTTCTTCTGTCTGCAAAACGAAACAGGAGAACTACTTGCACAGAATATGTAATCTCCATGGATGCCGATAACATATC
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ttgttaccttctatagcctataaatgtacattgagaatttttttggacttagttgtcattgtctctgggacatgttctg-aattcatgactgttcat--gcagCATTGCTAGTTGAAAATGGAAAGTTTCTTCTTTCTGCAAAACGGACCAGAAGAACTACATGCACAGAGTATATTATATCAATGGATGCAGATAACATATC
upper sequence: Vv18s0072g00630.t01 (Vitis vinifera), 3'ss of exon 2
lower sequence: GLYMA16G28200.2 (Glycine max), 3'ss of exon 3
---actaaatacttatatatataaaaaaaagataatgctttactaaatgcttttcctaatgtccattatttgtgatatgtgatttattgtt--ccatatttgcagCTTTGCTTGTTGAAAATGGGAAATTTCTTCTGTCTGCAAAACGAAACAGGAGAACTACTTGCACAGAATATGTAATCTCCATGGATGCCGATAACATATC
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gtcgttaccttctacagcctataaatgtacattgagaagtttttggacttagttgtcattgtc-----tctgggacatttttttaattcttgactgtccatgcagCATTGCTAGTTGAAAATGGAAAGTTTCTTCTTTCTGCAAAACGGACCAGAAGAACAACATGCACAGAGTATATTATATCAATGGATGCGGATAACATATC
upper sequence: Vv18s0072g00630.t01 (Vitis vinifera), 3'ss of exon 2
lower sequence: GLYMA07G17890.1 (Glycine max), 3'ss of exon 4
actaaatacttatat-atataaaaaaaagataatgctttactaaatgcttttcctaatgtccattatttgtgatatgtgatttatt-----gttccatatttgcagCTTTGCTTGTTGAAAATGGGAAATTTCTTCTGTCTGCAAAACGAAACAGGAGAACTACTTGCACAGAATATGTAATCTCCATGGATGCCGATAACATATC
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-----gtgatgatgccacatcatgcttaattgcttagttgcttattgttattgttattgtcttttggacctgttttg-gactcataagtcagttctactcctgcagTCTTGCTTGTTGAAAATGGAAAGTTTCTTCTCTCTGCAAAACGGACAAGAAGAACAACTTGCACAAAGTATATTATATCAATGAATGCAGATAACATATC
upper sequence: Vv18s0072g00630.t01 (Vitis vinifera), 3'ss of exon 2
lower sequence: GLYMA12G13060.1 (Glycine max), 3'ss of exon 2
actaaatacttatat-atataaaaaaaagataatgctttactaaatgcttttcctaatgtccattatttgtgatatgtgatttatt-----gttccatatttgcagCTTTGCTTGTTGAAAATGGGAAATTTCTTCTGTCTGCAAAACGAAACAGGAGAACTACTTGCACAGAATATGTAATCTCCATGGATGCCGATAACATATC
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-----gtgctgatgccacatcatgcttaattgcttaattgcttattgttattgttattgtcttttggacctgttttg-gactcataagtcagttctactcctacagTCTTGCTTGTTGAAAATGGAAAGTTTCTTCTCTCTGCAAAATGGACAAGAAGAACAACTTGCACAGAGTATATTATATCAATGAATACAGATAACATATCMapped 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|110732567|gb|EE107967.1|EE107967EST: GAGGGACAAGTCCAACTTGACTTACCACCTTTTCCTTTGCCTTAGCCCTG CTTTGCTTGTTGAAAATGGGAAATTTCTTCTGTCTGCAAAACGAAACAGGA
genomic: GAGGGACAAGTCCAACTTGACTTACCACCTTTTCCTTTGCCTTAGCCCTGgtaagattct ... atatttgcagCTTTGCTTGTTGAAAATGGGAAATTTCTTCTGTCTGCAAAACGAAACAGGA
EST:
gi|110731881|gb|EE106679.1|EE106679EST: GAGGGACAAGTCCAACTTGACTTACCACCTTTTCCTTTGCCTTAGCCCTG CTTTGCTTGTTGAAAATGGGAAATTTCTTCTGTCTGCAAAACGAAACAGGA
genomic: GAGGGACAAGTCCAACTTGACTTACCACCTTTTCCTTTGCCTTAGCCCTGgtaagattct ... atatttgcagCTTTGCTTGTTGAAAATGGGAAATTTCTTCTGTCTGCAAAACGAAACAGGA
atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.gcttttcctaatgtccattatttgtgatatgtgatttattgttccatatttgcagCTTTGCTTGTTGAAAATGGGAAATTTCTTCTGTCTGCAAAACGAAACAGGAGAACTACTTGCACAGAATATGTAATCTCCATGGATGCCGATAACATATC
tcctaat putative branch site (score: 2)
attatttgtgatat 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
actaaatacttatatatataaaaaaaagataatgctttactaaatgcttttcctaatgtccattatttgtgatatgtgatttattgttccatatttgcagCTTTGCTTGTTGAAAATGGGAAATTTCTTCTGTCTGCAAAACGAAACAGGAGAACTACTTGCACAGAATATGTAATCTCCATGGATGCCGATAACATATC
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - CATGGA
- - - - - - - - - -aaaaaaa
- - - - - - - - - - - - - - - - - - - - - - - - - - - aatgtcc