Sequence
atgc intronic sequence ATGC exonic sequencegttagtgttccctatcagttatattttctacttcttcacaacatttcttttatcagaactacttcacagcatttgataacttcaactttttcttcttcatatatgtggcatctgcagAGACTATTCAAAAACTTATGCTCGATCTAAGTACTATGATGAAGCAAAACCTTGGAGTGAAAGGTGTGATGTTGCATTTCCTTGTGCTTCTCAGAATGAA
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: Vv09s0002g02530.t01 (Vitis vinifera), 3'ss of exon 10
lower sequence: GRMZM2G015289_T02 (Zea mays), 3'ss of exon 10
gttagtgttccctatcagttatattttctacttcttcacaacatttctttta-tcagaactacttcacagcatttgataacttcaactttttcttcttcatatatgtggcatctgcagAGACTATTCAAAAACTTATGCTCGATCTAAGTACTATGATGAAGCAAAACCTTGGAGTGAAAGGTGTGATGTTGCATTTCCTTGTGCTTCTCAGAATGAA
| |||| |||| | | | | | ||| || || | | | |||| ||| ||| ||| || || | ||| | ||| | | ||||||| |||||| |||||||| ||||| | ||||||||||||||||||||||||| || || |||||
----------------------------------gtgggtacatgcctttcccttatttttggcttgta-catgtggagttttttagatatctttctccatttattcaa-----acagGGAGTACTTGAAATCATATCCACATGCTAAGTATATTGATGATGCAAAACCATGGAGCCAGCGGTGTGATGTTGCATTTCCTTGTGCATCACATAATGAG
upper sequence: Vv09s0002g02530.t01 (Vitis vinifera), 3'ss of exon 10
lower sequence: GLYMA08G20930.2 (Glycine max), 3'ss of exon 11
gttagtgttccctatcagttatattttctacttcttcacaacatttcttttatcagaactacttcacagcatttgataacttcaactttttcttcttcatatatgtggcatctgcagAGACTATTCAAAAACTTATGCTCGATCTAAGTACTATGATGAAGCAAAACCTTGGAGTGAAAGGTGTGATGTTGCATTTCCTTGTGCTTCTCAGAATGAA
| | ||||||| || || | || | | |||| || | | | || |||||| || || || |||||||||||||| || |||||||| || || || ||||||||||||||||||||||||||||||||||||||||||||| | |||||||| |||||||||
---------------------------------gtgtgtatcatttctgttgtctgtttatgtttgctattatgtataatttta--ctgtcctcgttcataaattgacaatatgtagAGACTATTCAAAGACCTATGCTCGGTCCAAATATTATGATGAAGCAAAACCTTGGAGTGAAAGGTGTGATGTTGCATTTGCCTGTGCTTCACAGAATGAA
upper sequence: Vv09s0002g02530.t01 (Vitis vinifera), 3'ss of exon 10
lower sequence: GLYMA07G01510.2 (Glycine max), 3'ss of exon 11
gttagtgttccctatcagttatattttctacttcttcacaacatttcttttatcagaactacttcacagcatttgataacttcaactttttcttcttcatatatgtggcatctgcagAGACTATTCAAAAACTTATGCTCGATCTAAGTACTATGATGAAGCAAAACCTTGGAGTGAAAGGTGTGATGTTGCATTTCCTTGTGCTTCTCAGAATGAA
| | || | | | ||||| | ||| | || | |||| || | | | ||| |||||| || | || || |||||||||||||| || |||||||| || || || ||||||||||||||||| ||||||||||||||||||||||||||| ||||| |||| |||||||||
-------------------------gtttgtatcattcctgttgtctgtttatgctttattcttgctattatgt-ataatttta--ctgtccttgttcataaatttacaatatgtagAGACTATTCAAAGACCTATGCTCGGTCCAAATATTATGATGAAGCAAAACCATGGAGTGAAAGGTGTGATGTTGCATTTGCTTGTACTTCACAGAATGAA
upper sequence: Vv09s0002g02530.t01 (Vitis vinifera), 3'ss of exon 10
lower sequence: GLYMA16G32870.1 (Glycine max), 3'ss of exon 2
gttagtgttccctatcagttatattttctacttcttcacaacatttcttttatcagaactacttcacagcatttgataacttcaactttttcttcttcatatatgtggcatctgcagAGACTATTCAAAAACTTATGCTCGATCTAAGTACTATGATGAAGCAAAACCTTGGAGTGAAAGGTGTGATGTTGCATTTCCTTGTGCTTCTCAGAATGAA
|| | | | | || || | | | ||||| ||| | || | |||| |||| | | |||||||||| || || || |||||||||||||| || |||||||| || | || ||||||||||||||||| |||| |||||||||||||||||||||| | ||||||| |||||||||
----------------gtttgtgtataatttttgttgtctgtttatgctttat-------gcttgctattatgt-ataatttca--ctgtccttcttcataaattgacaatatgtagAGACTATTCAAAGACCTATGCTCGGTCCAGATATTATGATGAAGCAAAACCGTGGAATGAAAGGTGTGATGTTGCATTTGCAGGTGCTTCACAGAATGAA
upper sequence: Vv09s0002g02530.t01 (Vitis vinifera), 3'ss of exon 10
lower sequence: GLYMA09G28010.1 (Glycine max), 3'ss of exon 2
gttagtgttccctatcagttatattttctacttcttcacaacatttcttttatcagaactacttcacagcatttgataacttcaactttttcttcttcatatatgtggcatctgcagAGACTATTCAAAAACTTATGCTCGA----TCTAAGTACTATGATGAAGCAAAACCTTGGAGTGAAAGGTGTGATGTTGCATTTCCTTGTGCTTCTCAGAATGAA
||| || || | | | ||||| | ||||| | || || || | | | ||| |||||| || || ||||||||||||||||| || | |||||| || | || ||||||||||||||||| |||| |||||||||||||||||||||| ||| |||||| |||||
----------------gtttacggttagagtatcatttctgttgtctgtttatgctttatgcttcatattatgtggtataattttactgtccttgttcataaattgacaatatgcagAGACTATTCAAAGACCTGTGCTCGTGCGCTCCAGATATTATGATGAAGCAAAACCGTGGAATGAAAGGTGTGATGTTGCATTTGCTTATGCTTCACAGAA----
upper sequence: Vv09s0002g02530.t01 (Vitis vinifera), 3'ss of exon 10
lower sequence: AT1G51720.1 (Arabidopsis thaliana), 3'ss of exon 11
gttagtgttccctatcagttatattttctacttcttcacaacatttcttttatcagaac----tacttcacagcatttgat-aacttcaactttttcttcttcatatatgtggcatctgcagAGACTATTCAAAAACTTATGCTCGATCTAAGTACTATGATGAAGCAAAACCTTGGAGTGAAAGGTGTGATGTTGCATTTCCTTGTGCTTCTCAGAATGAA
|||| | | |||| || | || ||| | || | | | || | || ||| | |||||||||||||| || || ||||| | | || |||| ||||||| ||| ||||||| ||||||||||||||| |||||||||||||||||||||||||||
----------------------------------------gtatttgtcgtcctagaatactatagtatttgtcacttggttaatcatatagatcccaactgtacatgtgtctgttatgcagAGACTATTCCAAGACCTATGCAAGGGCGAAATACTTTGATGAATTAAAGCCTTGGAATGAAAGGTGTGATGTGGCATTTCCTTGTGCTTCTCAGAATGAAMapped 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|110374522|gb|EC939340.1|EC939340EST: ATGAAAATATCATTTTTGAGAGAGATCAAAAGTCAACAAAGAAGTTTGAG AGACTATTCAAAAACTTATGCTCGATCTAAGTACTATGATGAAGCAAAACC
genomic: ATGAAAATATCATTTTTGAGAGAGATCAAAAGTCAACAAAGAAGTTTGAGgttagtgttc ... gcatctgcagAGACTATTCAAAAACTTATGCTCGATCTAAGTACTATGATGAAGCAAAACC
atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.ttcacagcatttgataacttcaactttttcttcttcatatatgtggcatctgcagAGACTATTCAAAAACTTATGCTCGATCTAAGTACTATGATGAAGCAAAACCTTGGAGTGAAAGGTGTGATGTTGCATTTCCTTGTGCTTCTCAGAATGAA
tgataac putative branch site (score: 2)
atttgataa 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gttagtgttccctatcagttatattttctacttcttcacaacatttcttttatcagaactacttcacagcatttgataacttcaactttttcttcttcatatatgtggcatctgcagAGACTATTCAAAAACTTATGCTCGATCTAAGTACTATGATGAAGCAAAACCTTGGAGTGAAAGGTGTGATGTTGCATTTCCTTGTGCTTCTCAGAATGAA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TTGGAG