Sequence
atgc intronic sequence ATGC exonic sequencegtatcgtttttgttctgcttaatcaattattactttctattatcttcctgattctaatttgagatttgattttgggcagGGTTTTAATAAGTCACTTGTGGAAAATAGTGCCATCACCCTTGGGAGGCTTGCTTGGGTCTGCCCAGAGATTGTAGCACTGCATATGGAGCATTTTATGC
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: Vv18s0001g00910.t01 (Vitis vinifera), 3'ss of exon 24
lower sequence: LOC_Os04g59494.1 (Oryza sativa), 3'ss of exon 24
-------------gtatcgtttttgttctgc---ttaatcaattattactttctattatcttcctgattctaatttgagatttgattttgggcagGGTTTTAATAAGTCACTTGTGGAAAATAGTGCCATCACCCTTGGGAGGCTTGCTTGGGTCTGCCCAGAGATTGTAGCACTGCATATGGAGCATTTTATGC
| ||| | | | ||| || | | |||| || | ||| | | ||| || ||| ||||| || |||||||||||| | |||||||| || ||||| |||||||||||| |||||||| ||||| ||||| || | || ||||| ||||| ||||
gtaattgcattttaagttgttctcatcacgtcttttactcgagtgagcatttcagctaaatgcctcgtg-tgtcctgacatactatt----acagGGCTTGAATAAGTCACTTCTCGAAAATAGCGCAATCACTCTTGGGAGGCTTTGCTGGGTCTGTCCAGACATTGTGGCCCCCCACATGGACCATTTCATGC
upper sequence: Vv18s0001g00910.t01 (Vitis vinifera), 3'ss of exon 24
lower sequence: GRMZM2G376731_T01 (Zea mays), 3'ss of exon 24
--gtatcgtttttgttctgctta-atcaattattactttctatt--atcttcctgattctaatttgagatttgattttgggcagGGTTTTAATAAGTCACTTGTGGAAAATAGTGCCATCACCCTTGGGAGGCTTGCTTGGGTCTGCCCAGAGATTGTAGCACTGCATATGGAGCATTTTATGC
| | |||| | |||| ||| | | | || ||| | || || | || || | ||| |||||||| || ||||||||||| ||||||||||| ||||| |||||||||||| |||||||| ||||| || || || | |||||||||||||| ||||
gtgggtgattttaaggtttcttatgtcacgtttcatttaaaatttcaactaaatggctagttttccccccttcacattga-cagGGTTTGAACAAGTCACTTGTTGAAAATAGTGCGATCACTCTTGGGAGGCTTAGCTGGGTCTGTCCAGACATCGTGGCCCCTCATATGGAGCATTTCATGC
upper sequence: Vv18s0001g00910.t01 (Vitis vinifera), 3'ss of exon 24
lower sequence: GRMZM5G869572_T01 (Zea mays), 3'ss of exon 4
----gt-atcgtttttgttctgcttaatcaatta--ttactttctattatcttcctgattctaatttgagatttgattttgggcagGGTTTTAATAAGTCACTTGTGGAAAATAGTGCCATCACCCTTGGGAGGCTTGCTTGGGTCTGCCCAGAGATTGTAGCACTGCATATGGAGCATTTTATGC
|| || || |||| |||| ||| | | | ||| | | ||| | | ||| | ||| ||||||||| || ||||||||||| ||||| || || ||||| |||||||||||| ||||| || ||||| || || || | |||||||||||||| ||||
gtgagtgatttttagtgtttcatttaagatcttaactaaatgactagttttttcttcttctcccttttccttcacatt---ggcagGGTTCGAACAAGTCACTTGTTGAAAACAGCGCGATCACTCTTGGGAGGCTTAGCTGGGTGTGTCCAGACATCGTGGCCCCTCATATGGAGCATTTCATGC
upper sequence: Vv18s0001g00910.t01 (Vitis vinifera), 3'ss of exon 24
lower sequence: GLYMA20G24040.1 (Glycine max), 3'ss of exon 24
gtatcgtttttgttctgcttaatcaattattactttctattatcttcctgattctaatttgagatttgattttgggcagGGTTTTAATAAGTCACTTGTGGAAAATAGTGCCATCACCCTTGGGAGGCTTGCTTGGGTCTGCCCAGAGATTGTAGCACTGCATATGGAGCATTTTATGC
|| || | | | | | | || ||| | || ||| | | || ||| | | | | |||| | || ||||||||| | ||||||||||| || || | ||||||||||| |||||||| || ||| ||||| ||| |||||||||||||| ||||
--gtcattatcacgtcacattcttgaattataattttggtcatgttca-gttgctgatt----gtcttgctgtttatagGGACTCAACAAGTCACTTATAGAAAATAGTGCAATAACATTGGGGAGGCTTGCATGGGTCTGTCCGGAGCTTGTATCACCACATATGGAGCATTTCATGC
upper sequence: Vv18s0001g00910.t01 (Vitis vinifera), 3'ss of exon 24
lower sequence: GLYMA10G42960.1 (Glycine max), 3'ss of exon 24
gtatcgtttttgttctgc-ttaatcaattattactttctattatcttcctgattctaatttgagatttgattttgggcagGGTTTTAATAAGTCACTTGTGGAAAATAGTGCCATCACCCTTGGGAGGCTTGCTTGGGTCTGCCCAGAGATTGTAGCACTGCATATGGAGCATTTTATGC
|| || | | || |||||||| | ||| | | || ||| | | || ||| | | | | |||| | || ||||| ||| | ||||||||||| || || || ||||||||||| |||||||| || ||| ||||| ||| |||||||||||||| ||||
--gtcattatcacatcacattcttcaattataattttgt-tcatgttca-gttgctgatt----gtcttgctgtttatagGGACTCAACAAGTCGCTTATAGAAAATAGTGCAATAACACTGGGGAGGCTTGCATGGGTCTGTCCGGAGCTTGTATCACCACATATGGAGCATTTCATGCMapped 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|294964682|gb|GW838485.1|GW838485EST: TTGTGATGACAGTTGTCTCGTGCCTAGCTCCAATCCTTCAACAGGCAGAG GGTTTTAATAAGTCACTTGTGGAAAATAGTGCCATCACCCTTGGGAGGCTT
genomic: TTGTGATGACAGTTGTCTCGTGCCTAGCTCCAATCCTTCAACAGGCAGAGgtatcgtttt ... ttttgggcagGGTTTTAATAAGTCACTTGTGGAAAATAGTGCCATCACCCTTGGGAGGCTT
atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.aattattactttctattatcttcctgattctaatttgagatttgattttgggcagGGTTTTAATAAGTCACTTGTGGAAAATAGTGCCATCACCCTTGGGAGGCTTGCTTGGGTCTGCCCAGAGATTGTAGCACTGCATATGGAGCATTTTATGC
ttactttctattat 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gtatcgtttttgttctgcttaatcaattattactttctattatcttcctgattctaatttgagatttgattttgggcagGGTTTTAATAAGTCACTTGTGGAAAATAGTGCCATCACCCTTGGGAGGCTTGCTTGGGTCTGCCCAGAGATTGTAGCACTGCATATGGAGCATTTTATGC
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GGAGCA