Sequence
atgc intronic sequence ATGC exonic sequence...agttctttctccttttctctatctgttcttctctatttattctcttctctctctcctgtctctatgccggtctaccgtcgggcactctctggacacacagCCTAATCGAATTCTCTTAGTTACAATTCATCACCTGCTATACCCTATAACAGTGGAGGTGCTGCATCAAGTGTTTTCTCCTCATGGTTTTGTGGAGAAGA
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: Vv18s0072g00310.t01 (Vitis vinifera), 3'ss of exon 4
lower sequence: LOC_Os01g64770.2 (Oryza sativa), 3'ss of exon 5
agttctttctccttttc--------tctatctgttcttctctatttattctcttctctctctcctgtctctatgccggtctaccgtcgggcactct-ctggacacacagCCTAATCGAATTCTCTTAGTTACAATTCATCACCTGCTATACCCTATAACAGTGGAGGTGCTGCATCAAGTGTTTTCTCCTCATGGTTTTGTGGAGAAGA
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---tttctcttctgttccaactagatgtgcctattcttctttattcattcttctatctctctcctcttttctttctcggtactcgtctgctgctgggcctcagGAAGAACCTAACCGAATTCTGTTAGTAACCATTCATCATATGCTTTACCCTATAACCATTGAAGTGCTTCATCAAGTGTTTTCTCCCTATGGATTTGTGG------
upper sequence: Vv18s0072g00310.t01 (Vitis vinifera), 3'ss of exon 4
lower sequence: LOC_Os05g36120.1 (Oryza sativa), 3'ss of exon 5
-------agttctttctcc--ttttctctatctgttcttctctatttattctcttctct---ctctcctgtctctatgccggtctaccgtcgggcactctctggacacacagCCTAATCGAATTCTCTTAGTTACAATTCATCACCTGCTATACCCTATAACAGTGGAGGTGCTGCATCAAGTGTTTTCTCCTCATGGTTTTGTGGAGAAGA
|| || | | | ||| | ||| |||||||||||||| ||||| ||||| ||||| ||| || | | | |||| ||| ||| || | || || ||||| ||||||||||| ||||| ||| || | || |||||||| |||||||| || |||||||| || || |||| | ||
tactgtatcttattgttacaactagatctgcgtattcctctctatttattcttctctctcctctctcttgtcttggtgcttgtttgctgctgggc---ctcagGAGTCAGAACCCAACCGAATCCTCTTAGTTACTATTCACCACATGATGTATCCTATAACTGTGGAGGTTCTACATCAAGTTTTCAAAGCTTATGGATATG---------
upper sequence: Vv18s0072g00310.t01 (Vitis vinifera), 3'ss of exon 4
lower sequence: GLYMA02G08870.1 (Glycine max), 3'ss of exon 5
agttctttctccttttctctatctgttcttctctatttattctct---tctctctctcctgtctctatgccggtctaccgtcgggcactctctggacacacagCCTAATCGAATTCTCTTAGTTACAATTCATCACCTGCTATACCCTATAACAGTGGAGGTGCTGCATCAAGTGTTTTCTCCTCATGGTTTTGTGGAGAAGA
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--ttctttctctttatcacaaacttctctatttattctcctttctctctctctcttctctttctctatgctg-tctgctgtcggcaactctctggatgcacagCCAAATCGAATTCTCTTAGTTACAGTTCATCACATGCTGTATCCTATAACAGCGGATGTGCTACATCAAGTGTTTTCTCCCCATGGATTTGTGGAAAAGA
upper sequence: Vv18s0072g00310.t01 (Vitis vinifera), 3'ss of exon 4
lower sequence: GLYMA20G30820.1 (Glycine max), 3'ss of exon 5
agttctttctccttttctctatc-tgttcttctctatttattctcttctctctctc--------ctgtctctatgccggtctaccgtcgggcactctctggacacacagCCTAATCGAATTCTCTTAGTTACAATTCATCACCTGCTATACCCTATAACAGTGGAGGTGCTGCATCAAGTGTTTTCTCCTCATGGTTTTGTGGAGAAGA
| || ||| |||| ||| ||||||||||||||||| | ||||||| || ||||||||| | || | |||||| ||||| ||| ||||||| || |||||||||||||| ||| |||||||| |||| || ||||| |||||||| |||||| ||||||| |||||||| ||||| | |||||| ||||
-------cttttttctctttatcatgtacttctctatttattctcctttctctctatctcttcactttctctatgctgtcctgctgtcgggaactct--ggatgcacagCCAAACCGAATTCTCTTAGTCACAGTTCATCACATGCTGTATCCTATGACAGTGGATGTGCTGTATCAAGTATTTTCTCCCCATGGATCTGTGGAAAAGA
upper sequence: Vv18s0072g00310.t01 (Vitis vinifera), 3'ss of exon 4
lower sequence: GLYMA10G36770.1 (Glycine max), 3'ss of exon 4
agttctttctccttttctctatc-tgttcttctctatttattctcttctctctctc------ctgtctctatgccggtctaccgtcgggcactctctggacacacagCCTAATCGAATTCTCTTAGTTACAATTCATCACCTGCTATACCCTATAACAGTGGAGGTGCTGCATCAAGTGTTTTCTCCTCATGGTTTTGTGGAGAAGA
|| || ||| |||| ||| |||||||||||||||| ||||||| || || ||||||||||| || | ||| || |||||||||| ||||||| || |||||||||||||| ||| |||||||| || | || ||||| || ||||| |||||| ||||||| |||||||| ||||| | |||||| ||||
-------cctttttctctttatcatgtacttctctatttattcttctctctctgtctcttcgctttctctatgccgtcctgctgtctggaactctctggatgcacagCCAAACCGAATTCTCTTAGTCACAGTTCATCACATGTTGTATCCTATGACTGTGGATGTGCTGTATCAAGTATTTTCTCCCCATGGATCTGTGGAAAAGA
upper sequence: Vv18s0072g00310.t01 (Vitis vinifera), 3'ss of exon 4
lower sequence: AT1G43190.1 (Arabidopsis thaliana), 3'ss of exon 5
----------------------------------------------------------------------------------------agttctttctccttttctctatctgttcttctctatttattctcttctctctctcctgtctctatgccggtctaccgtcg--ggcactctctggacacacagCCTAATCGAATTCTCTTAGTTACAATTCATCACCTGCTATACCCTATAACAGTGGAGGTGCTGCATCAAGTGTTTTCTCCTCATGGTTTTGTGGAGAAGA
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gtttgtaattttattagccgtttgattatataagtagcagtgctagttgtgttattgtcttgttatagaggtacttacatttcgtagtggttcttaaccgtcacttctatattcaattcttttcttttctttctatcttcgttccgtcttttgtctaactggtggttgctgtgggatggtggatgtacagCCGAACCGTATTCTCTTAGTCACAATCCATCACATGCTGTATCCAATTACTGTTGACGTCCTGCATCAAGTTTTTTCTCCCTATGGATTTGTCGAGAAGC
upper sequence: Vv18s0072g00310.t01 (Vitis vinifera), 3'ss of exon 4
lower sequence: PP1S48_128V6.1 (Physcomitrella patens), 3'ss of exon 5
---------------------------------------------------------------------------------------------------agttctttctccttttctctatctgttcttctctatttattctcttctctctctcc-tgt--------ctctatgccggtctaccgtcgggcactctctggacac-acagCCTAATCGAATTCTCTTAGTTACAATTCATCACCTGCTATACCCTATAACAGTGGAGGTGCTGCATCAAGTGTTTTCTCCTCATGGTTTTGTGGAGAAGA
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gtcagtctcggatcttgatccccatttgtgtgtattcctctggatgcttctctgtgggtacgcgagtcatcttcccaatagacaggccttagcctctcttttgcttgtctttcttctctggcttctctcacctcttttcctccttccttcttcccatgttggggaaacgttggacttgtctctgctttgctattcttcagGAACTGCTGCCCAATCGAATTCTTTTAATTACCATACACAACCCGCTCTATCCTATCACCGTGGATGTGCTGCACCAAGTGTTTTCCCCTCATGGCTTTG---------
upper sequence: Vv18s0072g00310.t01 (Vitis vinifera), 3'ss of exon 4
lower sequence: EFJ25472 (Selaginella moellendorffii), 3'ss of exon 4
---------------------------------------------------------------------------------------agttctttctccttttctctatctgttct-------tctctatttattctcttctc--tctctcctgtctctatgccggtctac--cgtcgggcactctctggacacacagCCTAATCGAATTCTCTTAGTTACAATTCATCACCTGCTATACCCTATAACAGTGGAGGTGCTGCATCAAGTGTTTTCTCCTCATGGTTTTGTGGAGAAGA
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gtttgtctcctaggatggactgagtgcctttatctctagatggaagcaccagttctcaagaatttttctttctttctttttgctttggattttctttagctttctacttcagtactggctccctcacttctttttctcttcctgtcttctcttgtatct-tgctggaacgcggtgtgggtcttcttcagGATCAACAACCCAACCGAATTCTCTTAGTTACTATTCACCACCCGCTCTATCCCATCACCGTGGATGTGCTGCATCAAGTTTTTAACCCTCATGGCCATG---------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|110387338|gb|EC951996.1|EC951996EST: ATCAAGAACTAACAACAGTGGATCAGAATGCTCAAGGACGAGGAGATGAG CCTAATCGAATTCTCTTAGTTACAATTCATCACCTGCTATACCCTATAACA
genomic: ATCAAGAACTAACAACAGTGGATCAGAATGCTCAAGGACGAGGAGATGAGgttagtgtct ... ggacacacagCCTAATCGAATTCTCTTAGTTACAATTCATCACCTGCTATACCCTATAACA
atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.tctctctctcctgtctctatgccggtctaccgtcgggcactctctggacacacagCCTAATCGAATTCTCTTAGTTACAATTCATCACCTGCTATACCCTATAACAGTGGAGGTGCTGCATCAAGTGTTTTCTCCTCATGGTTTTGTGGAGAAGA
ctctctg CT-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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
agttctttctccttttctctatctgttcttctctatttattctcttctctctctcctgtctctatgccggtctaccgtcgggcactctctggacacacagCCTAATCGAATTCTCTTAGTTACAATTCATCACCTGCTATACCCTATAACAGTGGAGGTGCTGCATCAAGTGTTTTCTCCTCATGGTTTTGTGGAGAAGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGTGGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GTGGAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TGGAGG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TGCTGC
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - CTCCTC
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GTGGAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TGGAGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GGAGAA
- - -tttctcc
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - cactctc