Sequence
atgc intronic sequence ATGC exonic sequence...ccatctattaagttttagtagtggtttaagagattgtagcaatgcttgttatttattataagagattcaattccatgaagtgggacctattgtttgacagGTTACCATAATGTTTGTGACTTTGGAGAAAATTGCACAAACCGACCCAAAATATGCTGATATTTTGCTTTTGGAGAATTTTGCAGCTTTCCAGAATAG
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: Vv18s0001g11700.t01 (Vitis vinifera), 3'ss of exon 19
lower sequence: LOC_Os11g17600.1 (Oryza sativa), 3'ss of exon 19
--ccatctattaagttttagtagtggtttaagagattgtagcaatgcttgttatttattataagagattcaattccatgaagtgggacctattgtttga-cagGTTACCATAATGTTTGTGACTTTGGAGAAAATTGCACAAACCGACCCAAAATATGCTGATATTTTGCTTTTGGAGAATTTTGCAGCTTTCCAGAATAG
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tcttctttacgcagatct--cagtgttctgtgactttttttttatgaaagttaaatataatcata-accctattttagtcattaaatttttttttctgaacagGTGACCATTATGTTTGTGACCCTCGAGAAAATTGCTCAAGTGGAACCTAAATATGTTGACATTGTACTATTGGAGAATTATGCAGCTTTCCAGCACAG
upper sequence: Vv18s0001g11700.t01 (Vitis vinifera), 3'ss of exon 19
lower sequence: GRMZM2G060949_T01 (Zea mays), 3'ss of exon 7
----------------------------------------ccatctattaagtttta--gtagtggtttaagagattgtagc-aatgcttgttatttattataag--agattcaattccatgaagtggg---acctattgtttg--------acagGTTACCATAATGTTTGTGACTTTGGAGAAAATTGCACAAACCGACCCAAAATATGCTGATATTTTGCTTTTGGAGAATTTTGCAGCTTTCCAGAATAG
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gtatgaacttactataacattcaccattcaatgctaaacaccatttaacaaaatatacgccaactactgatgcatttgcaaccgatgttggccatttcataccactccgatttgtatttgcgcctctaattaacttaccatatgtgactgaaatagGTTACCATTATGTTTGTCATTCTGGAGAAAATTGCTCAAGTGGAACCTAAATATGTTGATATTGTACTTTTGGAAAACTATGCAGCTTTCCAGCACAG
upper sequence: Vv18s0001g11700.t01 (Vitis vinifera), 3'ss of exon 19
lower sequence: GLYMA09G18840.1 (Glycine max), 3'ss of exon 19
ccatctattaagttttagtagtggtttaagagattgtagcaatg-cttgttatttattataaga--gattcaattccatgaagtgggacctattgtttgacagGTTACCATAATGTTTGTGACTTTGGAGAAAATTGCACAAACCGACCCAAAATATGCTGATATTTTGCTTTTGGAGAATTTTGCAGCTTTCCAGAATAG
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-tgtctgt--aacccacataggaggaaatgagtccttaattgtttctttcaatttactatgtaattgttaccgtaatttgctggcgggaatgttgctttacagGTTAGCATAATGTTTGCAACTTTAGAAAAAATTGCACAAACAGATCCAAAGTATGCAGATATTTTTCTTTTTGAGAACTATGCTGCTTTTCAGAATAG
upper sequence: Vv18s0001g11700.t01 (Vitis vinifera), 3'ss of exon 19
lower sequence: GLYMA17G36540.1 (Glycine max), 3'ss of exon 19
ccatctattaagttttagtagtggtttaagagattgtagcaatgcttgttatttattataagagattcaattccatga-agtgg--gacctattgtttgacagGTTACCATAATGTTTGTGACTTTGGAGAAAATTGCACAAACCGACCCAAAATATGCTGATATTTTGCTTTTGGAGAATTTTGCAGCTTTCCAGAATAG
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--gtctgt-aacccacataagaggaaataagtccttaattgtttctttcaatttactacgtagtttttaccgtaatattactggcgggaatgtcgctttacagGTTAGCATAATGTTTGCAACTTTAGAAAAAATTGCACAAACAGATCCAAAGTATGCAGATATTTTCCTTTTTGAGAACTATGCTGCTTTTCAGAATAG
upper sequence: Vv18s0001g11700.t01 (Vitis vinifera), 3'ss of exon 19
lower sequence: GLYMA04G03710.1 (Glycine max), 3'ss of exon 19
ccatctattaagttttagtag--tgg-tttaagagattgtagcaatgct-tgttatttattataagagattcaattccatgaagtgggacctattgtttgacagGTTACCATAATGTTTGTGACTTTGGAGAAAATTGCACAAACCGACCCAAAATATGCTGATATTTTGCTTTTGGAGAATTTTGCAGCTTTCCAGAATAG
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atgcattccaagtactattaaattgcctttttcatatttcatcttttttctgtcactttttcctggc-atattgtttattg--gtgggat-tattgcttgacagGTTAGCATAATGTTTGTAACTTTGGAAAAAAATGCACAAACAGATCCCAAGTATGCAGACATTTTTCTTATTGAAAACTATGCCGCATTTCAGAATAGMapped 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|7593728|gb|AW707979.1|AW707979EST: CATCCAGGGACAATCTAGAGGATTTGGTTGATCAGGCATACACAAAATTT GTTACCATAATGTTTGTGACTTTGGAGAAAATTGCACAAACCGACCCAA
genomic: CATCCAGGGACAATCTAGAG-ATTTGGTTGATCAGGCATACACAAAATTTgtgagtactc ... tgtttgacagGTTACCATAATGTTTGTGACTTTGGAGAAAATTGCACAAACCGACCCAA
atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.ttgttatttattataagagattcaattccatgaagtgggacctattgtttgacagGTTACCATAATGTTTGTGACTTTGGAGAAAATTGCACAAACCGACCCAAAATATGCTGATATTTTGCTTTTGGAGAATTTTGCAGCTTTCCAGAATAG
atttattataagagat 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
ccatctattaagttttagtagtggtttaagagattgtagcaatgcttgttatttattataagagattcaattccatgaagtgggacctattgtttgacagGTTACCATAATGTTTGTGACTTTGGAGAAAATTGCACAAACCGACCCAAAATATGCTGATATTTTGCTTTTGGAGAATTTTGCAGCTTTCCAGAATAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - ATGCTG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GCTGAT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TTGGAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TGGAGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GGAGAA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GCAGCT
ccatcta
- - - - - - - - - - - - - taagaga
- - - - - - - - - - - - - - - - - - - -caatgct
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - ccatgaa