Sequence
atgc intronic sequence ATGC exonic sequencegtaagcatctggccatgtatctcttaggcgagctttcagtttcaaatgaatttgcattaggcctccatgttgttgttctacaaccttctcatgttattgcagGTAAAGCTACATTTTACAGAGAAAGCACTCAGACAGATCGCAAAGAAGGCAATGGTCAAGAATACGGGTGCTAGGGGTTTAAGAGCCCTACTAGAGAGCA
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: Vv18s0089g01240.t01 (Vitis vinifera), 3'ss of exon 12
lower sequence: GLYMA20G35600.1 (Glycine max), 3'ss of exon 12
gtaagcat-ctggccatgtatctcttaggcgagctttcagtttcaaatgaatttgcattaggcctccatgttgttgttctacaaccttctcatgttattgcagGTAAAGCTACATTTTACAGAGAAAGCACTCAGACAGATCGCAAAGAAGGCAATGGTCAAGAATACGGGTGCTAGGGGTTTAAGAGCCCTACTAGAGAGCA
| | | || | ||| | || ||| | | || | | || | | |||| || ||| || | | | |||||||||||||| || ||||||||||| || ||| ||| |||||||| ||||||| ||| ||||| ||||| |||||||||||||| ||||| || ||||
-ttactgtacttgttatgacttatgagtgcaagcaagtgatggggagtgtggacg-gtaagaggtatgtaaatttgt-ctgaaactttacccctaaacttcagGTAAAGCTACACTTCACAGAGAAAGCTCTGAGATTGATTGCAAAGAAAGCAATGGCCAAAAATACTGGTGCCAGGGGTTTAAGAGCACTACTGGAAAGCA
upper sequence: Vv18s0089g01240.t01 (Vitis vinifera), 3'ss of exon 12
lower sequence: GLYMA10G32040.1 (Glycine max), 3'ss of exon 11
gtaagcatctggccatgtatctcttaggcgagctttcagtt--tcaaatgaatttgcattaggcctccatgttgttgttctacaaccttctcatgttattgcagGTAAAGCTACATTTTACAGAGAAAGCACTCAGACAGATCGCAAAGAAGGCAATGGTCAAGAATACGGGTGCTAGGGGTTTAAGAGCCCTACTAGAGAGCA
|| | | ||| |||| | | || || | | | | ||| || | | | || ||| ||| || | | | |||||||||||||| || ||||||||||| | ||| ||| |||||||||||||||| ||| || || ||||| |||||||||||||| ||||| || ||||
gtgtttaatgtacttgttatgacttatgagtgcaagcaagtgatggggagtgtcggcagtaagaagtaaattcgt----ctaaaactttacccctaaacttcagGTAAAGCTACACTTCACAGAGAAAGCTCATAGATTGATTGCAAAGAAGGCAATGGCCAAAAAAACTGGTGCGAGGGGTTTAAGAGCACTACTGGAAAGCA
upper sequence: Vv18s0089g01240.t01 (Vitis vinifera), 3'ss of exon 12
lower sequence: GLYMA16G33080.1 (Glycine max), 3'ss of exon 13
gtaagcatctggcca-tgtatctcttaggcgagctttcagtttcaaatgaatttgcattaggcc---tccatgttgttgttctacaacctt-ctcatgttattgcagGTAAAGCTACATTTTACAGAGAAAGCACTCAGACAGATCGCAAAGAAGGCAATGGTCAAGAATACGGGTGCTAGGGGTTTAAGAGCCCTACTAGAGAGCA
||| || | | | ||| | || | | || | | || | | | | | | | | | || ||| ||| || | | | || ||||| ||| |||| || |||||||| || || |||| ||| ||||| || ||||||| ||| ||||| ||||| ||||||||||||||||| || || | ||
-----catttgtttaatctttctttcagttaaaactgcaagtg-agttgtttgtagagtggacaaagtgaagtctatttatctcaaactttacctgtactctt-cagGTTAAGTTACACTTCACAGAGAAGGCTCTAAGACTGATAGCAAAAAAAGCAATGGCCAAAAATACTGGTGCCAGGGGTTTAAGAGCCCTCCTGGAAAACA
upper sequence: Vv18s0089g01240.t01 (Vitis vinifera), 3'ss of exon 12
lower sequence: GLYMA09G28260.1 (Glycine max), 3'ss of exon 13
gtaagcatctggcca-tgtatctcttaggcgagctttcagtttcaaatgaatttgcattag--gcctccatgttgttgttctacaaccttctcatgttattgcagGTAAAGCTACATTTTACAGAGAAAGCACTCAGACAGATCGCAAAGAAGGCAATGGTCAAGAATACGGGTGCTAGGGGTTTAAGAGCCCTACTAGAGAGCA
||| || | | | ||| | || || | || | | | | | | | | | || ||| ||| || | | | | ||||| ||| |||| || |||||||| || || || | ||| ||||| || || |||| ||| ||||| ||||| |||||||||||||||||||| || ||||
-----catttgtttagtctttctttcagttaagactgcaagtgagtagctagtagggtggacaaagtgaagtctatttatctcaaactttacccttacacttcagGTTAAGTTACACTTCACAGAGAATGCTCTAAGGCTGATAGCAAAAAAAGCGATGGCCAAAAATACTGGTGCCAGGGGTTTAAGAGCCCTACTGGAAAGCAMapped 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|26257016|gb|CA808079.1|CA808079EST: NNNNNNNTGCTCTTGGTAAGCAGGACAAGAAATTGTTTAGCATGAACAAT GTAAAGCTACATTTTACAGA
genomic: AAAAAA-TGCTCTTGGTAAGCAGTACAAGAAATTGTTTAGCATGAACAATgtaagcatct ... gttattgcagGTAAAGCTACATTTTACAGA
EST:
gi|110698280|gb|EE075629.1|EE075629EST: CAAAAAATGCTCTTGGTAAGCAGTACAAGAAATTGTTTAGCATGAACAAT GTANAGCTACATTTTACAGAGAAAGCACTCAGACAGATCGCAAAGAAGGCA
genomic: CAAAAAATGCTCTTGGTAAGCAGTACAAGAAATTGTTTAGCATGAACAATgtaagcatct ... gttattgcagGTAAAGCTACATTTTACAGAGAAAGCACTCAGACAGATCGCAAAGAAGGCA
atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.gaatttgcattaggcctccatgttgttgttctacaaccttctcatgttattgcagGTAAAGCTACATTTTACAGAGAAAGCACTCAGACAGATCGCAAAGAAGGCAATGGTCAAGAATACGGGTGCTAGGGGTTTAAGAGCCCTACTAGAGAGCA
atgttatt 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gtaagcatctggccatgtatctcttaggcgagctttcagtttcaaatgaatttgcattaggcctccatgttgttgttctacaaccttctcatgttattgcagGTAAAGCTACATTTTACAGAGAAAGCACTCAGACAGATCGCAAAGAAGGCAATGGTCAAGAATACGGGTGCTAGGGGTTTAAGAGCCCTACTAGAGAGCA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGAGCA