Sequence
atgc intronic sequence ATGC exonic sequencegtctgttagagttcttaatactttagtgatcctcctttatatccttttcctgtatgcagtttattagtttctaacagaagctgtttgttgcagTTTAAAATGCGAGAACCACAGATGTGCAATGTTGTATGTCGTATGGAGCTGAATGCCAAAACTGCAAAGGAGTTCAAGGAAAAGATAGATGATGAGTATC
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: Vv11s0037g00210.t01 (Vitis vinifera), 3'ss of exon 2
lower sequence: LOC_Os09g38530.1 (Oryza sativa), 3'ss of exon 2
gtctgt-tagagttcttaatacttt--agtgatcctcctttatatccttttcctgtatg-cagtttattagt-ttctaacagaagctgtttgttgcagTTTAAAATGCGAGAACCACAGATGTGCAATGTTGTATGTCGTATGGAGCTGAATGCCAAAACTGCAAAGGAGTTCAAGGAAAAGATAGATGATGAGTATC
|| || | || | ||| ||| ||| ||||| | | | | ||| || | |||| | |||| | | | | | |||||| ||||| |||| || |||||||| | |||| || | | || ||| ||||||||| |||||||||||||||| ||||| ||||
gttagtaccgggtaactcatattttgaagtttatgtccttgaagtaatatgccttaatctctgtttgccatcattctttttg----tttgagctacagTTTCAAATGAGAGAGCCCAAGATGTGCCAGATTGTCTGCAAATTAACTGTTGGTGAGAAAGAAGCAAAGGAGCTCAAGGAAAAGATAGAGGATGAATATC
upper sequence: Vv11s0037g00210.t01 (Vitis vinifera), 3'ss of exon 2
lower sequence: GRMZM2G458845_T01 (Zea mays), 3'ss of exon 2
-------gtctgttagagttcttaatactttagtgatcctcctttatatcctttt---cctgtatgcagtttattagtttctaacagaagctgtttgttgcagTTTAAAATGCGAGAACCACAGATGTGCAATGTTGTATGTCGTATGGAGCTGAATGCCAAAACTGCAAAGGAGTTCAAGGAAAAGATAGATGATGAGTATC
| ||| | | | | | || | | ||| || | || | | || ||| || ||| | | | || | ||||| | ||| | || || |||||||| | || | || | | | ||| ||| |||||||| |||||||||||||||| ||||||||||
gtcagtactagattactgctagtcacatattcacctttgtaatttgtaatgtattaaatcactgagctgttatctactttgttgtttctcgtttgtgctatagTTTGAGATGGGGGAGCCCAAGATGTGCCAGATTATTTGCAAAACAAAAATTGATGATAAACAAACAAAGGAGCTCAAGGAAAAGATAGAGGATGAGTATC
upper sequence: Vv11s0037g00210.t01 (Vitis vinifera), 3'ss of exon 2
lower sequence: GLYMA06G28090.1 (Glycine max), 3'ss of exon 2
gtctgttagagttcttaatactttagtgatcctcctttatatccttttcctgtatgcagtttattagtttctaacagaagctgtttgttgcagTTTAAAATGCGAGAACCACAGATGTGCAATGTTGTATGTCGTATGGAGCTGAATGCCAAAACTGCAAAGGAGTTCAAGGAAAAGATAGATGATGAGTATC
||| | | ||| || | || || |||| | ||| ||| | | | || || | | |||| | | || || || ||||||||||| ||||||| ||||||||||||||||| ||||| | || ||||| ||||| || || |||||||||||||||||||||||||| ||||
----gttgg----ttaaatttttgcatcattcttctttct-tccatttagtatgttcaattacaaaaatactaaaacagtttgattcttcaagTTTAAAATGAGAGAACCCCAGATGTGCAATGTTGTTTGTCGGCTAACTCTCAATGCAAAAACAGCCAAAGAGTTCAAGGAAAAGATAGATGATGAATATC
upper sequence: Vv11s0037g00210.t01 (Vitis vinifera), 3'ss of exon 2
lower sequence: GLYMA02G36550.1 (Glycine max), 3'ss of exon 2
gtctgttagagttcttaatactttag--tgatcctcctttatatccttttcctgtatgcagtttattagtttctaacagaagctgtt----tgttgcagTTTAAAATGCGAGAACCACAGATGTGCAATGTTGTATGTCGTATGGAGCTGAATGCCAAAACTGCAAAGGAGTTCAAGGAAAAGATAGATGATGAGTATC
||| | | | ||| || | | | | || |||| | | | || | || | | ||| || || | || |||||||||||| ||||||||||| |||||||||||| |||||| || || ||| ||| | || || ||||||||||||| |||||||||||||||||
----gttggtttattaaatctttcggacaggttccaactttccaccttatgtttagtatgtttcactactaaaatattgaaacttttaaatttttccagTTTAAAATGAGAGAACCACAGCTGTGCAATGTTGCTTGTCGTCTGATTCTTGATGAAAAAGCAGCCAAAGAGTTCAAGGAAATGATAGATGATGAGTATC
upper sequence: Vv11s0037g00210.t01 (Vitis vinifera), 3'ss of exon 2
lower sequence: GLYMA17G08130.1 (Glycine max), 3'ss of exon 2
gtctgttagagttcttaatactttagtgatcctcctttatatcctt---ttcctgtatgcagtttattagtttctaacagaagctgtttgttgcagTTTAAAATGCGAGAACCACAGATGTGCAATGTTGTATGTCGTATGGAGCTGAATGCCAAAACTGCAAAGGAGTTCAAGGAAAAGATAGATGATGAGTATC
|| ||| | | || | || | ||| |||| || | || | | | | | | | | | | | | || || || |||||||||||| ||||||||||| |||||||||||| |||||| | || ||| ||||| || || ||||||||||||| |||||||||||||||||
gttggtttaaatctttcagac----aggttccagctttctacctttagtgtattatgtttcactactaaaatattgaaacattttgattcttccagTTTAAAATGAGAGAACCACAGCTGTGCAATGTTGCTTGTCGTCTAATTCTTGATGAGAAAACGGCCAAAGAGTTCAAGGAAATGATAGATGATGAGTATC
upper sequence: Vv11s0037g00210.t01 (Vitis vinifera), 3'ss of exon 2
lower sequence: GLYMA12G23900.1 (Glycine max), 3'ss of exon 1
gtctgttagagttcttaatactttagtgatcctcctttatatccttttcctgtatgcagtttattagtttctaacagaagctgtttgttgcagTTTAAAATGCGAGAACCACAGATGTGCAATGTTGTATGTCGTATGGAGCTGAATGCCAAAACTGCAAAGGAGTTCAAGGAAAAGATAGATGATGAGTATC
||| | | ||| || | | || | || | ||| ||| | | | || || | | || | | | || || || ||||||||||| |||||| ||||||||||||||||| ||||| | || ||||| ||||| || |
----gttgg----ttaaatttttgcatcactcttccttct-tccatttagtatgttcaattccaaaaatactgaaacagtttggttcttcaagTTTAAAATGAGAGAACGCCAGATGTGCAATGTTGTTTGTCGGCTAACTCTCAATGCAAAAACAGCTAGA-------------------------------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|110713316|gb|EE089129.1|EE089129EST: ATCTTGGTGAAGTTCTTCGGGGTGATCGTATTGAAAACTCTCCTTATGTG TTTAAAATGCGAGAACCACAGATGTGCAATGTTGTATGTCGTGTGGAGCTG
genomic: ATCTTGGTGAAGTTCTTCGGGGTGATCGTATTGAAAACTCTCCTTATGTGgtctgttaga ... tttgttgcagTTTAAAATGCGAGAACCACAGATGTGCAATGTTGTATGTCGTATGGAGCTG
EST:
gi|161716766|gb|FC067205.1|FC067205EST: ATCTTGGTGAAGTTCTTCGGGGTGATCGTATTGAAAACTCTCCTTATGTG TTTAAAATGCGAGAACCACAGATGTGCAATGTTGTATGTCGTGTGGAGCTG
genomic: ATCTTGGTGAAGTTCTTCGGGGTGATCGTATTGAAAACTCTCCTTATGTGgtctgttaga ... tttgttgcagTTTAAAATGCGAGAACCACAGATGTGCAATGTTGTATGTCGTATGGAGCTG
atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.atatccttttcctgtatgcagtttattagtttctaacagaagctgtttgttgcagTTTAAAATGCGAGAACCACAGATGTGCAATGTTGTATGTCGTATGGAGCTGAATGCCAAAACTGCAAAGGAGTTCAAGGAAAAGATAGATGATGAGTATC
ttctaac putative branch site (score: 1)
tttattagtttctaa 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gtctgttagagttcttaatactttagtgatcctcctttatatccttttcctgtatgcagtttattagtttctaacagaagctgtttgttgcagTTTAAAATGCGAGAACCACAGATGTGCAATGTTGTATGTCGTATGGAGCTGAATGCCAAAACTGCAAAGGAGTTCAAGGAAAAGATAGATGATGAGTATC
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GCAAAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGGAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGGAA