Sequence
atgc intronic sequence ATGC exonic sequencegtatctccctccctctccaaaaataaaatatcatcgttcctttctgtttactggattttggatcatctatgagactaatttgttttatttttttctcattagTTTGTTGCAGTGACTCAACCCATCAATGCTTTAGCTTTTGTATTTGATGGAGTCAACTTTGGAGCTTCCGATTTTGCATATTCTGCCTGTTCTATG
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: Vv08s0007g08200.t01 (Vitis vinifera), 3'ss of exon 11
lower sequence: LOC_Os10g13940.1 (Oryza sativa), 3'ss of exon 9
----------------------------------------------------------------------------------------gtatctccctccctctccaaaaataaaatatcatcgttcctttctgtttactggattttggatcatctatgagactaatttgttttatttttttctcattagTTTGTTGCAGTGACTCAACCCATCAATGCTTTAGCTTTTGTATTTGATGGAGTCAACTTTGGAGCTTCCGATTTTGCATATTCTGCCTGTTCTATG
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gtaaactttctttatactgatgccaaaataattacaattttaagtcatattgtagttaggattcctcagttgtgtgcgggagcctgatgttcctttatgatatctttcctactgtgcattgggatgcctgcctactgtcagagttacctggaatttttttaactaaagagttat---ttttcctgttcagTTTGTCTCTCTGACTCAACCAATCAATGCGTTAGCTTTTGTTTTTGATGGTATCAATTATGGAGCATCAGATTTTGGATATGCTGCTTATTCAATG
upper sequence: Vv08s0007g08200.t01 (Vitis vinifera), 3'ss of exon 11
lower sequence: GLYMA10G21860.1 (Glycine max), 3'ss of exon 12
----gtatctccctccctctccaaaaataaaatatcatcgttcctttctgtttactggattttggatcatctatgagactaatttgttttatttt---tttctcatt------------agTTTGTTGCAGTGACTCAACCCATCAATGCTTTAGCTTTTGTATTTGATGGAGTCAACTTTGGAGCTTCCGATTTTGCATATTCTGCCTGTTCTATG
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gtaagtaatatccttatgatttaaaataataatactctc--tctttgcaatatattagtttccaaa--attagaaaagctgatatgttttcctctcgtttacttgttgaacacttggctagTATGTTGCTGCCACTCAACCCATCAACGCCCTGGCATTTGTTTTTGATGGAGTCAACTATGGAGCTTCAGATTTCACATATTCTGCTTACTCAATG
upper sequence: Vv08s0007g08200.t01 (Vitis vinifera), 3'ss of exon 11
lower sequence: GLYMA02G31370.1 (Glycine max), 3'ss of exon 11
----gtatctccctccctctccaaaaataaaatatcatcgttcctttctgtttactggattttggatcatctatgagactaatttgttttatttttttctcattagTT----------------TGTTGCAGTGACTCAACCCATCAATGCTTTAGCTTTTGTATTTGATGGAGTCAACTTTGGAGCTTCCGATTTTGCATATTCTGCCTGTTCTATG
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gtaagtaatatccttatgatttaaaataatagtactctc--tctttgcaatatattagtttccaaa--attagaaaagcttatatgtttttcctctcttttacttgttgaaaacttggccagTATGTTGCTGCCACTCAACCCATCAATGCCCTGGCATTTGTTTTCGATGGAGTCAACTATGGAGCTTCAGATTTCACATATTCTGCATACTCAATGMapped 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|110418727|gb|EC984898.1|EC984898EST: TATTTACCAAAGACGTCAATGTTTTGCAGCTAATGAATCTAGGCATTCCG TTTGTTGCAGTGACTCAACCCATCAATGCTTTAGCTTTTGTATTTGATGGA
genomic: TATTTACCAAAGACGTCAATGTTTTGCAGCTAATGAATCTAGGCATTCCGgtatctccct ... ttctcattagTTTGTTGCAGTGACTCAACCCATCAATGCTTTAGCTTTTGTATTTGATGGA
EST:
gi|46910331|gb|CN545706.1|CN545706EST: TATTTACCAAAGACGTCAATGTTTTGCAGCTAATGAATCTAGGCATTCCG TTTGTTGCAGTGACACAACCCATCAATGCTTTAGCTTTTGTATTTGATGGA
genomic: TATTTACCAAAGACGTCAATGTTTTGCAGCTAATGAATCTAGGCATTCCGgtatctccct ... ttctcattagTTTGTTGCAGTGACTCAACCCATCAATGCTTTAGCTTTTGTATTTGATGGA
atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.ttactggattttggatcatctatgagactaatttgttttatttttttctcattagTTTGTTGCAGTGACTCAACCCATCAATGCTTTAGCTTTTGTATTTGATGGAGTCAACTTTGGAGCTTCCGATTTTGCATATTCTGCCTGTTCTATG
gactaat putative branch site (score: 2)
tttgttttattttttt CT-rich tract
actaatttgttttatt 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gtatctccctccctctccaaaaataaaatatcatcgttcctttctgtttactggattttggatcatctatgagactaatttgttttatttttttctcattagTTTGTTGCAGTGACTCAACCCATCAATGCTTTAGCTTTTGTATTTGATGGAGTCAACTTTGGAGCTTCCGATTTTGCATATTCTGCCTGTTCTATG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TTGGAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GGAGCT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GAGCTT