Sequence
atgc intronic sequence ATGC exonic sequencegtatcttatcgcaattctatgcttattaaattatggttgtcatttcctctttcttaaatttcatcttctttaatcatgttcagCATTCAGAAGATCTTGAGAGTGGTTTCAGCTCAGATGTTGAATCCAAGTACAAGAAGATATATGAGGATGATATAAATCCCTTTGCTGCTTTCTCCAAAA
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: Vv17s0000g03970.t01 (Vitis vinifera), 3'ss of exon 15
lower sequence: LOC_Os03g50300.1 (Oryza sativa), 3'ss of exon 14
gtatcttatcgcaattctatgcttattaaattatggttgtcatttcctctttcttaaatttcatcttcttta-atcatgtt---cagCATTCAGAAGATCTTGAGAGTGGTTTCAGCTCAGATGTTGAATCCAAGTACAAGAAGATATATGAGGATGATATAAATCCCTTTGCTGCTTTCTCCAAAA--
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---gtttatacacatcct---ttcaagggaaaatagcaaaatccacagcattctagcttttgacctttgttacattgtgttttgcagTATGCAGAAGATGTTGAAAGTGGTTCT---TCAGATGTTGAGACGAAGTACAAGAAAATGTATGAGGATGACATAAATCCTTTTGCTGCTTTTTCAAAGAAG
upper sequence: Vv17s0000g03970.t01 (Vitis vinifera), 3'ss of exon 15
lower sequence: GRMZM2G011219_T02 (Zea mays), 3'ss of exon 14
gtatcttatcgcaattctatgcttattaaattatggttgtcatttcctctttcttaaatttcatcttctttaatcatgttcagCATTCAGAAGATCTTGAGAGTGGTTTCAGCTCAGATGTTGAATCCAAGTACAAGAAGATATATGAGGATGATATAAATCCCTTTGCTGCTTTCTCCAAAA--
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---gtttatcacaaatctttttatgtaaatttgt-----ctctccgcattttcttgcatttgacctttgttgtgttattgcagTACGCAGAAGATATTGAAAGTGGTTCT---TCTGATGTTGAAGCAAAGTACAAGAAAATGTATGAGGATGACATAAACCCGTTTGCTGCTTTTTCAAAGAAG
upper sequence: Vv17s0000g03970.t01 (Vitis vinifera), 3'ss of exon 15
lower sequence: GLYMA09G31920.1 (Glycine max), 3'ss of exon 17
-----------gtatcttatcgcaattctatgcttattaaattatggttgtcatttcctcttt---cttaaatttcatcttctttaa----tcatgttcagCATTCAGAAGATCTTGAGAGTGGTTTCAGCTCAGATGTTGAATCCAAGTACAAGAAGATATATGAGGATGATATAAATCCCTTTGCTGCTTTCTCCAAAA
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gtttttaatttgtg-cttaaaacatcactctatttcattcttcaagataacttttttcccttttaccctgaactcagatttatttgtgattttttgttcagTATGCTGAAGATCTTGAAAGTGGTTTCATGTCAGATGTGGAATCTAAATACAAGAAGATATATGAGGATGATATAAATCCTTTTGCTGCATTCTCAAAAA
upper sequence: Vv17s0000g03970.t01 (Vitis vinifera), 3'ss of exon 15
lower sequence: GLYMA07G09890.3 (Glycine max), 3'ss of exon 15
-------gtatcttatcgcaattctatgcttattaaa---ttatggttgtcatttcctcttt---cttaaatttcatcttctttaat-----catgttcagCATTCAGAAGATCTTGAGAGTGGTTTCAGCTCAGATGTTGAATCCAAGTACAAGAAGATATATGAGGATGATATAAATCCCTTTGCTGCTTTCTCCAAAA
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gtttttaatgtgttcttaaaacatcattctatttcagtcttcaagataacctttttcccttttaccctgaactcaagatttgtttgtgattatatgtacagTATGCTGAAGATCTTGAAAGTGGTTTCGCGTCAGATGTTGAATCTAAATACAAGAAGATATATGAGGATGATATAAATCCTTTTGCTGCATTCTCAAAAA
upper sequence: Vv17s0000g03970.t01 (Vitis vinifera), 3'ss of exon 15
lower sequence: AT3G18480.1 (Arabidopsis thaliana), 3'ss of exon 15
gtatcttatcgcaattctatgctta--ttaaattatggttgtc-----atttcctctttcttaaatttcatcttctttaatcatgttcagCATTCAGAAGATCTTGAGAGTGGTTTCAGCTCAGATGTTGAATCCAAGTACAAGAAGATATATGAGGATGATATAAATCCCTTTGCTGCTTTCTCCAAAA
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gtatttgttttctgcgatacatttcccttgaaccttttctgtctcgtgatcgggttttttccatggttgatatcgttttccaat-ctcagTATGTGGAAGATCTTGAAAGTGGATTCAGCTCGGATGTCGAATCAAAATACAAGAAAATTTACGAAGATGACATCAACCCTTTTGCAGCATTCTCGAAAAMapped 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|30125770|gb|CB911109.1|CB911109EST: ATGTCCAGGATTATAATCTTGAGAAAGTAGTTTCTAGAGGATCAAAGAAG CATTCAGAAGATCTTGAGAGTGGTTTCAGCTCAGATGTTGAATCCAAGTAC
genomic: ATGTCCAGGATTATAATCTTGAGAAAGTAGTTTCTAGAGGATCAAAGAAGgtatcttatc ... tcatgttcagCATTCAGAAGATCTTGAGAGTGGTTTCAGCTCAGATGTTGAATCCAAGTAC
atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.aattatggttgtcatttcctctttcttaaatttcatcttctttaatcatgttcagCATTCAGAAGATCTTGAGAGTGGTTTCAGCTCAGATGTTGAATCCAAGTACAAGAAGATATATGAGGATGATATAAATCCCTTTGCTGCTTTCTCCAAAA
ctttaat putative branch site (score: 4)
ttaaatttcatcttct 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gtatcttatcgcaattctatgcttattaaattatggttgtcatttcctctttcttaaatttcatcttctttaatcatgttcagCATTCAGAAGATCTTGAGAGTGGTTTCAGCTCAGATGTTGAATCCAAGTACAAGAAGATATATGAGGATGATATAAATCCCTTTGCTGCTTTCTCCAAAA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGAAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GAGGAT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGGATG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TGCTGC
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GCTGCT