Sequence
atgc intronic sequence ATGC exonic sequence...agcccattgcattaagcttgttaaagctgacatagttctttgttgatttttctcttcccatcaaatgccatggttgaccgatatgtgttggtttttctagGTTTGTTCGATTTGTGAGCACTCCAGAGGTATTGGAACGGGTGTACACAATAGAATCTGAGATCATACAGATTGGGGAAGCAATTGCAATTCAGAGCAAC
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: Vv05s0049g01280.t01 (Vitis vinifera), 3'ss of exon 2
lower sequence: GLYMA20G35020.1 (Glycine max), 3'ss of exon 2
-agcccattgcattaagcttgttaaagctgacatagttctttgttgatttttctcttcccatcaaatgcca---tggttgaccgatatgtgttggtttttctagGTTTGTTCGATTTGTGAGCACTCCAGAGGTATTGGAACGGGTGTACACAATAGAATCTGAGATCATACAGATTGGGGAAGCAATTGCAATTCAGAGCAAC
| || ||| | | | ||| || | | | ||| | | | | || | | || | ||| || | | | | || | |||||||||||| |||||||| ||||| ||| |||||||||| ||||| || ||||||| || ||| ||||||||| || |||||||||||||| | ||
ggggaaatggcagtgaaaccat--gctttgaaattaaacat-atatattatgaccatgtaactgaaagttagtctgctcgactaattt-tctctgcttctgtagGTTTGTTCGTTTTGTGAGTACTCCTGAGATATTGGAACGTGTGTATACTGTAGAATCAGAAATCTTACAGATTGAAGAGGCAATTGCAATTCAAGGAAAT
upper sequence: Vv05s0049g01280.t01 (Vitis vinifera), 3'ss of exon 2
lower sequence: GLYMA10G00660.1 (Glycine max), 3'ss of exon 2
--agcccattgcattaagcttgttaaagctgacatagttctttgttgatttttctcttcccatcaaatgccatggttgaccgatatgtgttggtttttctagGTTTGTTCGATTTGTGAGCACTCCAGAGGTATTGGAACGGGTGTACACAATAGAATCTGAGATCATACAGATTGGGGAAGCAATTGCAATTCAGAGCAAC
| | | ||| |||| | || ||| | || || || | || || | |||| | || || | || || | |||||||||||| ||||| |||||||| |||||||||||||| ||||| || ||||||||||| || ||| |||| || |||||||||||||| | ||
aaggttggaaacttaaagtttgtcctcttacaaatgattcatggt-gagattcagttgtatataaattagcatgctgaactaatttcctctg-cttctgtagGTTTGTTCGCTTTGTTAGCACTCCTGAGGTATTGGAACGTGTGTATACTATAGAATCTGAAATTGCACAAATTGAAGAGGCAATTGCAATTCAAGGAAAT
upper sequence: Vv05s0049g01280.t01 (Vitis vinifera), 3'ss of exon 2
lower sequence: GLYMA02G00690.1 (Glycine max), 3'ss of exon 2
--agcccattgcattaagcttgttaaagctgacatagttctttgttgatttttctcttcccatcaaatgccatggttgaccgatatgtgttggtttttctagGTTTGTTCGATTTGTGAGCACTCCAGAGGTATTGGAACGGGTGTACACAATAGAATCTGAGATCATACAGATTGGGGAAGCAATTGCAATTCAGAGCAAC
| | | ||| ||| || |||| || || || ||| || || | |||| || || | || || | |||||||||||| ||||| |||||||| |||||||||||||| ||||| || |||||||| || || ||| |||| || |||||||||||||| | ||
aaggttggaaacttaaagtgtgtcctcttacgaatgattctaggt-gacattcagtttcatataaattagcatgcagaactaatttcctctg-cttctgtagGTTTGTTCGCTTTGTTAGCACTCCTGAGGTATTGGAACGTGTGTATACTATAGAATCCGAAATTGCACAAATTGAAGAGGCAATTGCAATTCAAGGAAAT
upper sequence: Vv05s0049g01280.t01 (Vitis vinifera), 3'ss of exon 2
lower sequence: GLYMA10G32560.1 (Glycine max), 3'ss of exon 3
-agcccattgcatt-aagcttgttaaagctgacatagttctttgttgatttttctcttcccatcaaat-gccatggttgaccgatatgtgttggtttttctagGTTTGTTCGATTTGTGAGCACTCCAGAGGTATTGGAACGGGTGTACACAATAGAATCTGAGATCATACAGATTGGGGAAGCAATTGCAATTCAGAGCAAC
| | ||| || || || | | | || | | | | | | | || | | || | ||| || | | | | || | |||||||||||| |||||||||||||| ||| | |||||||
gtgaaaaatgctttgaaatttaacatatatatgatggccttgtaactgtaaggttagagacttgaagttagcctgctggactaattt-tctctgcttctgtagGTTTGTTCGTTTTGTGAGCACTCCTGAGATCTTGGAAC--------------------------------------------------------------Mapped 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|122691481|gb|EC978576.1|EC978576EST: CCAAAACCTGGCAGTGATGCAACATGGTTTGCCAAGGGCACTGTGGAAAG GTTTGTTCGATTTGTGAGCACTCGCAGAGGTATTGGAACGGGTGTACACAA
genomic: CCAAAACCTGGCAGTGATGCAACATGGTTTGCCAAGGGCACTGTGGAAAGgtttgtactg ... gtttttctagGTTTGTTCGATTTGTGAGCACTC-CAGAGGTATTGGAACGGGTGTACACAA
atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.atttttctcttcccatcaaatgccatggttgaccgatatgtgttggtttttctagGTTTGTTCGATTTGTGAGCACTCCAGAGGTATTGGAACGGGTGTACACAATAGAATCTGAGATCATACAGATTGGGGAAGCAATTGCAATTCAGAGCAAC
ggttgac putative branch site (score: 4)
tttttct putative PPT
tttttcta 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
agcccattgcattaagcttgttaaagctgacatagttctttgttgatttttctcttcccatcaaatgccatggttgaccgatatgtgttggtttttctagGTTTGTTCGATTTGTGAGCACTCCAGAGGTATTGGAACGGGTGTACACAATAGAATCTGAGATCATACAGATTGGGGAAGCAATTGCAATTCAGAGCAAC
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GAGATC
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGATCA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGCAA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGAGCA
- cccattg
- - - - - - - - - - - - - ctgacat
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -ccatggt