Sequence
atgc intronic sequence ATGC exonic sequencegtttagcctatggttttaaagtctattcgccactacagtttaggatttgcttgttaaagggttctcatttttgctaattgtagGGTTTGATGACCGCTTTTAGAGTTGAAGACCTACCCATTGAGTCCAAGATGTTGACAAAGGCACTAGATGAAGCACAGCGGAAAGTAGAGAATTATTTCT
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: Vv07s0005g02610.t01 (Vitis vinifera), 3'ss of exon 16
lower sequence: LOC_Os01g21820.1 (Oryza sativa), 3'ss of exon 14
-------------gtttagcctatggttttaaag---tctattcgccactacagtttaggatttgcttgtt--aaagggttctcatttttgctaattgtagGGTTTGATGACCGCTTTTAGAGTTGAAGACCTACCCATTGAGTCCAAGATGTTGACAAAGGCACTAGATGAAGCACAGCGGAAAGTAGAGAATTATTTCT
|||| | ||||| | | | | | ||||| || ||| |||| | | || |||| || | ||||||||||||| || || ||||| ||||| || || |||||||| |||||| |||||| ||| ||||||||||| || |||||||| ||||| |||||||
tcagtactacttgcattagttcaaacatttaatgagagccaataaatagaacagtataa-attcaattgtctgataacattgccattcgtgatgtacgtagGGTTTGATGCAAGCCTTCAGAGTCGAAGATCTTCCTATTGAGTCGAAGATGCTGACAAGGGCTCTAGATGAAGCTCAACGGAAAGTTGAGAACTATTTCT
upper sequence: Vv07s0005g02610.t01 (Vitis vinifera), 3'ss of exon 16
lower sequence: GLYMA02G01060.2 (Glycine max), 3'ss of exon 15
--------------------gtttagcctatggttttaaagtctattcgccactacagtttaggatttgcttgttaaagggttc-tcatttttgctaattgtagGGTTTGATGACCGCTTTTAGAGTTGAAGACCTACCCATTGAGTCCAAGATGTTGACAAAGGCACTAGATGAAGCACAGCGGAAAGTAGAGAATTATTTCT
|| || ||| |||| || | || ||||| || | ||||| ||| || || | | | ||| | ||||||| || ||| ||||| ||||||||||||||||| |||||||||||||||||||| || ||| |||| ||||| || ||||||| ||||| |||||||
gtatttttggtggagatcgaattcaggtaatgcatttattgtgt---tgctgctaca-cttggaatttgattgcccaaaacttagttaatattgtgatatgtagGGCTTAATGCGAGCTTTCAGAGTTGAAGACCTACCTATTGAGTCCAAGATGTTGACCAAAGCATTAGACGAAGCCCAAAGGAAAGTGGAGAACTATTTCT
upper sequence: Vv07s0005g02610.t01 (Vitis vinifera), 3'ss of exon 16
lower sequence: GLYMA02G01060.1 (Glycine max), 3'ss of exon 16
gtttagcctatggttttaaagtctattcgccactacagtttaggatttgcttgttaaagggttc-tcatttttgctaattgtagGGTTTGATGACCGCTTTTAGAGTTGAAGACCTACCCATTGAGTCCAAGATGTTGACAAAGGCACTAGATGAAGCACAGCGGAAAGTAGAGAATTATTTCT
||| |||| || | || ||||| || | ||||| ||| || || | | | ||| | ||||||| || ||| ||||| ||||||||||||||||| |||||||||||||||||||| || ||| |||| ||||| || ||||||| ||||| |||||||
------gtaatgcatttattgtgt---tgctgctaca-cttggaatttgattgcccaaaacttagttaatattgtgatatgtagGGCTTAATGCGAGCTTTCAGAGTTGAAGACCTACCTATTGAGTCCAAGATGTTGACCAAAGCATTAGACGAAGCCCAAAGGAAAGTGGAGAACTATTTCT
upper sequence: Vv07s0005g02610.t01 (Vitis vinifera), 3'ss of exon 16
lower sequence: GLYMA10G27810.1 (Glycine max), 3'ss of exon 16
gtttagcctatggttttaaagtctattcgccactacagtttaggatttgcttgttaaagggttc-tcatttttgctaattgtagGGTTTGATGACCGCTTTTAGAGTTGAAGACCTACCCATTGAGTCCAAGATGTTGACAAAGGCACTAGATGAAGCACAGCGGAAAGTAGAGAATTATTTCT
| | || | || ||||| || |||| ||| | || | | | ||| | ||||||| | ||| || || ||||||||||||||||| ||||| |||||||||||||| || || |||||||||| || ||||||| ||||| |||||||
---------gtaatgcatttgttgtgttgctgctacacttggaattttgattggccagaacttggttaatattgtgatgtgtagGGCCTAATGCAAGCGTTCAGAGTTGAAGACCTACCTATTGAATCCAAGATGTTGACCAAAGCTTTAGATGAAGCCCAAAGGAAAGTGGAGAACTATTTCTMapped 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|110720527|gb|EE096525.1|EE096525EST: TTAGTCTTGAAGATAACATCTTTCGAATTTTTGGGGGAGACAGAATTCAG GGTTTGATGACCGCTTTTAGAGTTGAAGACCTACCGATTGAGTCCAAGATG
genomic: TTAGTCTTGAAGATAACATCTTTCGAATTTTTGGGGGAGACAGAATTCAGgtttagccta ... ctaattgtagGGTTTGATGACCGCTTTTAGAGTTGAAGACCTACCCATTGAGTCCAAGATG
atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.gccactacagtttaggatttgcttgttaaagggttctcatttttgctaattgtagGGTTTGATGACCGCTTTTAGAGTTGAAGACCTACCCATTGAGTCCAAGATGTTGACAAAGGCACTAGATGAAGCACAGCGGAAAGTAGAGAATTATTTCT
tgctaat putative branch site (score: 2)
ttctcatttttgct CT-rich tract
ttgttaaa 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gtttagcctatggttttaaagtctattcgccactacagtttaggatttgcttgttaaagggttctcatttttgctaattgtagGGTTTGATGACCGCTTTTAGAGTTGAAGACCTACCCATTGAGTCCAAGATGTTGACAAAGGCACTAGATGAAGCACAGCGGAAAGTAGAGAATTATTTCT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TGAAGC