Sequence
atgc intronic sequence ATGC exonic sequence...tctatttcatgctgttgtctgaatatattatactcatttgattttttttttcccttttaattcttttttttatttatttttttttgggttctttgtacagATCTCCATTGGTTATTTTCTGTCAGACTTGGCAATGATTCTTTGGAATTTTCCAGCTTTAGGCGGTCTGGAGTAT
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: Vv06s0004g08450.t01 (Vitis vinifera), 3'ss of exon 4
lower sequence: GLYMA02G40520.1 (Glycine max), 3'ss of exon 3
--------------------------------------------tctatttcatgctgttgtctgaatatattatactcatttgattttttttttcccttttaattctttttt------ttatttatttttttttgggttcttt--gtacagATCTCCATTGGTTATTTTCTGTCAGACTTGGCAATGATTCTTTGGAATTTTCCAGCTTTAGGCGGTCTGGAGTAT
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gtaagttgaagatataagcaaaattggttgttggtttcatgcaatcttaatagcaacagtgttgttaagcattattaaggttctgtttcacaccctatctgtaatttattttaaggctgttgtcttacttgttctgttttgtttcattacagATTTCTATTGGTTATTTTCTAACAGATTTGGCAATGATTCTTTGGAATTTTCCAGCTTTAGGGGGTCTTGAATAT
upper sequence: Vv06s0004g08450.t01 (Vitis vinifera), 3'ss of exon 4
lower sequence: GLYMA18G05520.1 (Glycine max), 3'ss of exon 4
----tctatttcatgctgttgtctgaatatattatactcatttgattttttttttcccttttaattcttttttttatttatttttttttgggttctttgtacagATCTCCATTGGTTATTTTCTGTCAGACTTGGCAATGATTCTTTGGAATTTTCCAGCTTTAGGCGGTCTGGAGTAT
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ttcctgtgagtaacattattgttttgccttattacaacaat--gattgtcctgttggcttatttgtgattttgtcttctacaatatttccc-ctctttttacaGATTTCTATAGGTTATTTTCTAGCAGATCTGGCAATGATTCTTTGGCATTTCCCAGCTTTAGGGGGTCTGGAATA-
upper sequence: Vv06s0004g08450.t01 (Vitis vinifera), 3'ss of exon 4
lower sequence: GLYMA14G38830.1 (Glycine max), 3'ss of exon 3
---tctatttcatgctgttgtctgaatatattatactcatttgattttttttttcccttttaattcttttttttatttatttttttttgggttctttgtacagATCTCCATTGGTTATTTTCTGTCAGACTTGGCAATGATTCTTTGGAATTTTCCAGCTTTAGGCGGTCTGGAGTAT
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taagcattattaagattttgtttgg-cacaccatatctgt--aatttatttatggctgttggcttacttgttctgttttgtttcattatacttccttgaacagGTTTCTATTGGTTATTTTCTAACAGATCTGGCGATGATTCTTTGGAATTTTCCAGCTTTAGGGGGTCTTGAATAT
upper sequence: Vv06s0004g08450.t01 (Vitis vinifera), 3'ss of exon 4
lower sequence: GLYMA11G31750.1 (Glycine max), 3'ss of exon 4
tctatt--tcatgctgttgtctgaatat-attatactcatttgattttttttttcccttttaattcttttttttatttatttttttttgggttctttgtacagATCTCCATTGGTTATTTTCTGTCAGACTTGGCAATGATTCTTTGGAATTTTCCAGCTTTAGGCGGTCTGGAGTAT
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cttgttagtaacattattgtttttgccttattaaaacaatgattgtactgttagcttatttgtgattttgtcttatataatatttccc---ctcttttttcagATTTCTATAGGTTATTTTCTAGCAGATCTGGCAATGATTCTTTGGCATTTTCCAGCTTTAGGAGGTCTGGAATACMapped 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|122689520|gb|EC940529.1|EC940529EST: TGAGTCGATTA-TAATAGGGGCATCTACTTTATCAGACACCATCTTGGGG ATCTCCATTGGTTATTTTCTGTCAGACTTGGCAATGATTCTTTGGAATTTT
genomic: TGAGTCGATTATTAATA-GGGCATCTACTTTATCAGACACCATCTTGGGGgtaagttgat ... ctttgtacagATCTCCATTGGTTATTTTCTGTCAGACTTGGCAATGATTCTTTGGAATTTT
atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.ttttttcccttttaattcttttttttatttatttttttttgggttctttgtacagATCTCCATTGGTTATTTTCTGTCAGACTTGGCAATGATTCTTTGGAATTTTCCAGCTTTAGGCGGTCTGGAGTAT
ttttaat putative branch site (score: 3)
ttcttttttttattta CT-rich tract
ttttaattcttttttt 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
tctatttcatgctgttgtctgaatatattatactcatttgattttttttttcccttttaattcttttttttatttatttttttttgggttctttgtacagATCTCCATTGGTTATTTTCTGTCAGACTTGGCAATGATTCTTTGGAATTTTCCAGCTTTAGGCGGTCTGGAGTAT
- - - tcatgct
- - - - - - - -tgtctga