Sequence
atgc intronic sequence ATGC exonic sequence...aaggtccttttaaatcctgtcctatgctcttagtttcattgaatcctgaaatttatttatcttgatccacccctgtctgattatattaactcttttgcagGATTCTTCGGGAATATTTTGGGATAATGACAGTTTAGCAGGCCTACTGGCTTTGCAGCTAAAGGCTGACCTCCTTGTTCTATTGAGCGATGTAGATGGTC
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: Vv13s0019g02360.t01 (Vitis vinifera), 3'ss of exon 5
lower sequence: LOC_Os05g38150.2 (Oryza sativa), 3'ss of exon 4
--------------------------------------------------------------------------aaggtccttttaaatcctgt----cctatgctcttagtttcattgaatcctga-aatttatttatcttgatccacccctgtctgattatatt-------aactcttttgcagGATTCTTCGGGAATATTTTGGGATAATGACAGTTTAGCAGGCCTACTGGCTTTGCAGCTAAAGGCTGACCTCCTTGTTCTATTGAGCGATGTAGATGGTC
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gtatgtaagtgtgtttcataccatacatctcctggaaaagtatgaaacttcagtttttgcgtggtgctgctctttagctgctacttattgttatactgcttgtatgcctagcccta--gggccttgtcagtgtatatgcaaatagccatgactttctaaccacactcacctataattcttttacagGATTCATCTGGTATATTCTGGGATAATGACAGTTTAGCAGGACTGTTGGCACTGGAACTGAAAGCTGATCTCCTTATTCTGCTCAGTGATGTGGATGGGT
upper sequence: Vv13s0019g02360.t01 (Vitis vinifera), 3'ss of exon 5
lower sequence: AC203754.4_FGT008 (Zea mays), 3'ss of exon 5
-----------------------------------------------------aaggtccttttaa-atcctgt--cctatgc-tcttagtttcattgaatcctgaaatttatttatctt---gatccacccc---tgtc-tgattatattaactct---tttgcagGATTCTTCGGGAATATTTTGGGATAATGACAGTTTAGCAGGCCTACTGGCTTTGCAGCTAAAGGCTGACCTCCTTGTTCTATTGAGCGATGTAGATGGTC
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gtttgtgttgtaccatgcatgacattaaatttcaacaatatttgctgcactgcttgataaatgtgatatcgtgctacttatgcaccttgaccttaaccaatgcatgagtctgttgattttttaaaagcattttcgatgtcatactcataaacagtttgtttttgcagGATTCATCGGGTATATTTTGGGATAATGACAGTTTAGCCGGTCTTTTGGCTATAGAACTTAAAGCAGATCTTCTTGTTCTACTCAGTGACGTGGATGGCC
upper sequence: Vv13s0019g02360.t01 (Vitis vinifera), 3'ss of exon 5
lower sequence: GRMZM2G375504_T01 (Zea mays), 3'ss of exon 4
--------------------------aaggtccttttaa-atcctgt--cctatgctctta-gtttcattgaatcctgaaatttattta--tcttgatccacccctgtc-tgattat-attaactc--ttttgcagGATTCTTCGGGAATATTTTGGGATAATGACAGTTTAGCAGGCCTACTGGCTTTGCAGCTAAAGGCTGACCTCCTTGTTCTATTGAGCGATGTAGATGGTC
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gtttgtgttgtaccatgcatgccttcttgataaatgtgatatcatgatactcatgcacctgtaccttagccaatgcaggagtctgttaaagtctcaatagcattttgtgatgctcaccaacagttcctttttacagGATTCATCTGGTATATTCTGGGATAATGACAGTTTAGCTGGTCTTTTGGCTATTGAACTTAAAGCAGATCTCCTTGTTCTACTAAGTGATGTAGATGGTC
upper sequence: Vv13s0019g02360.t01 (Vitis vinifera), 3'ss of exon 5
lower sequence: GLYMA18G03830.1 (Glycine max), 3'ss of exon 5
------------------------------------------------aaggtccttttaaatcctgtcctatgctcttagtttcattgaatcctgaaatttatttatcttgatccacccctgtctga--ttatattaactctttt---gcagGATTCTTCGGGAATATTTTGGGATAATGACAGTTTAGCAGGCCTACTGGCTTTGCAGCTAAAGGCTGACCTCCTTGTTCTATTGAGCGATGTAGATGGTC
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gtttgttattctacttgtctggtttgttatcagagcagaacttaatcttagagctgattgcttcaagctatgcacctttataaaaaaaaaaacaggtgacgtatgagactagactagagaatacttaaagtgtcactaaatcattttatgcagGATTCTTCTGGCATATTTTGGGATAATGACAGTTTATCAGCTTTATTGGCATTGGAATTAAAAGCTGATCTTCTTATTTTGTTGAGTGATGTAGAGGGTC
upper sequence: Vv13s0019g02360.t01 (Vitis vinifera), 3'ss of exon 5
lower sequence: GLYMA02G41850.1 (Glycine max), 3'ss of exon 2
aaggtccttttaaatcctgtcctatgctcttagtttcattgaatcctgaaatttatttatcttgatccac-ccctgtctgattatattaactcttttgcagGATTCTTCGGGAATATTTTGGGATAATGACAGTTTAGCAGGCCTACTGGCTTTGCAGCTAAAGGCTGACCTCCTTGTTCTATTGAGCGATGTAGATGGTC
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-ttttcttttccagattgaaagtttagtttgaagttgctgcattctttccagttctatatatttaagtacatcaagtgtcattaacgttttttttgtgcagGATTCTTCTGGTATATTTTGGGATAATGATAGTTTATCTGCTCTGTTGGCCTTGGAGTTAAAAGCCGATCTTCTTGTTTTGTTGAGTGATGTAGAAGGTC
upper sequence: Vv13s0019g02360.t01 (Vitis vinifera), 3'ss of exon 5
lower sequence: GLYMA14G07120.1 (Glycine max), 3'ss of exon 2
-aaggtcc--ttttaaatcctgtcctatgctcttagtttcattgaatcctgaaatttatttatcttgatccacccctgtctgattatattaactcttttgcagGATTCTTCGGGAATATTTTGGGATAATGACAGTTTAGCAGGCCTACTGGCTTTGCAGCTAAAGGCTGACCTCCTTGTTCTATTGAGCGATGTAGATGGTC
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gaatgtttagtttggaattgctacctggaatacttgctttattgtttcc--atttctatctattcaagtacatcaa-gtgtcattaacgtattttatgtgcagGATTCTTCTGGTATATTTTGGGATAATGATAGTTTATCTGCTCTGTTGGCCTTGGAGTTAAAAGCCGATCTTCTTGTTTTGTTGAGTGATGTAGAAGGTC
upper sequence: Vv13s0019g02360.t01 (Vitis vinifera), 3'ss of exon 5
lower sequence: AT3G55610.2 (Arabidopsis thaliana), 3'ss of exon 5
------------------------------------------------------------------------aaggtccttttaaatcctgtcctatgctcttagtttcattgaatcctgaaatttattta----tcttgatccaccc-----ctgtctgattatattaactcttttgcagGATTCTTCGGGAATATTTTGGGATAATGACAGTTTAGCAGGCCTACTGGCTTTGCAGCTAAAGGCTGACCTCCTTGTTCTATTGAGCGATGTAGATGGTC
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gtttgttgattgcctttcttttgctctttgacatagagttctactaactttggagatgtgagaaattgtaaagcgatacttattgactgtacatgatgaaactagaatcaagtaatttcctagttcctctgaatcttttagtctactaacttacagcttcactgtacttcaacgtatacagGATTCTACTGGTATATTTTGGGATAATGACAGCTTAGCCGCTCTTCTGTCGCTAGAGCTGAAAGCTGATCTTTTGATTCTTCTAAGTGATGTTGAGGGCCMapped 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|87586525|gb|DY474768.1|DY474768EST: CTATATTTAATGAAAATGATGCTGTAAGTACAAGGAAAGCTCCATATGAG GATTCTTCGGGAATATTTTGGGATAATGACAGTTTAGCAGGCCTACTGGCT
genomic: CTATATTTAATGAAAATGATGCTGTAAGTACAAGGAAAGCTCCATATGAGgtatgttagt ... tcttttgcagGATTCTTCGGGAATATTTTGGGATAATGACAGTTTAGCAGGCCTACTGGCT
EST:
gi|110725458|gb|EE101979.1|EE101979EST: ACAAGGAAAGCTCCATATGAG GATTCTTCGGGAATATTTTGGGATAATGACAGTTTAGCAGGCCTACTGGCT
genomic: ACAAGGAAAGCTCCATATGAGgtatgttagt ... tcttttgcagGATTCTTCGGGAATATTTTGGGATAATGACAGTTTAGCAGGCCTACTGGCT
atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.ctgaaatttatttatcttgatccacccctgtctgattatattaactcttttgcagGATTCTTCGGGAATATTTTGGGATAATGACAGTTTAGCAGGCCTACTGGCTTTGCAGCTAAAGGCTGACCTCCTTGTTCTATTGAGCGATGTAGATGGTC
tattaac putative branch site (score: 1)
ctcttttgc CT-rich tract
attatattaactcttt 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
aaggtccttttaaatcctgtcctatgctcttagtttcattgaatcctgaaatttatttatcttgatccacccctgtctgattatattaactcttttgcagGATTCTTCGGGAATATTTTGGGATAATGACAGTTTAGCAGGCCTACTGGCTTTGCAGCTAAAGGCTGACCTCCTTGTTCTATTGAGCGATGTAGATGGTC
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GCAGCT
- - - - - - - -cctgtcc
- - - - - - - - - - - tatgctc
- - - - - - - - - - - - - - - - - - - -tgaatcc