Sequence
atgc intronic sequence ATGC exonic sequence...atgctattttctcaagtggtttttccaaattgtattcattctatgaatgctatatgagtctgattttattgctttatcttaactcttttcactctcgaagGTTGTGTTATCTACACTTGCGTTCACAGCATTTGAACTTCCACCTAATGGGGCTATTGGAACTAGGATTTTGGAGTTCCTTTTCCACTCAAGACCTGATT
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: Vv00s0282g00020.t01 (Vitis vinifera), 3'ss of exon 4
lower sequence: LOC_Os12g42300.1 (Oryza sativa), 3'ss of exon 3
---atgctattttctcaagtggtttttccaaattgtattcattctatgaatgctatatgagtctgattttattgctttatctta-actcttttcactctcgaagGTTGTGTTATCTACACTTGCGTTCACAGCATTTGAACTTCCACCTAATGGGGCTATTGGAACTAGGATTTTGGAGTTCCTTTTCCACTCAAGACCTGATT
|| |||| | | | | || || ||| ||| | | | | |||| | || | | |||| ||||| ||| ||||||| | || || || ||||| ||||| || || || ||||| |||||||| ||||||||||| | ||||||| ||||||| || | ||||||||||||
tatattgaatttggtttctttcaatacattactttggtttgttcattgatttcgacaaagttctg----tgatggctgaccttatgctcttcaatatcttgaagGTTCTTTTGTCAACCCTTGCTTTCACGGCGTTCGAGCTTCCTCCTAATGGTGCTATTGGAACCAAGATTTTGCAGTTCCTCTTTGATTCAAGACCTGATC
upper sequence: Vv00s0282g00020.t01 (Vitis vinifera), 3'ss of exon 4
lower sequence: GLYMA07G30360.2 (Glycine max), 3'ss of exon 5
atgctattttctcaagtggtttttccaaattgtattcattctatgaatgctatatgagtctgatt-ttattgctttatcttaactcttttcactctcgaagGTTGTGTTATCTACACTTGCGTTCACAGCATTTGAACTTCCACCTAATGGGGCTATTGGAACTAGGATTTTGGAGTTCCTTTTCCACTCAAGACCTGATT
| || || ||| | ||| | | | ||| ||| || || || || | || |||| || | | |||| | ||||||||| || ||||| | || || || || ||||||||||| || ||||| ||| ||||||| | |||||||| |||||||||||||| || ||||||
-ttgtacttagtcattcattctttatatttgttcaatatttataaaattacatttggccttgcttctccttattttaatttctatttaaacacttttgaagGTTGTATTGTCTACTTTAGCATTTACTGCTTTTGAACTTCCTCCAAATGGAGCTGTTGGAACAAAAATTTTGGAATTCCTTTTCCACTCTAGGCCTGATC
upper sequence: Vv00s0282g00020.t01 (Vitis vinifera), 3'ss of exon 4
lower sequence: GLYMA08G06890.1 (Glycine max), 3'ss of exon 4
---atgctattttctcaagtggtttttccaaattgtattcattctatgaat-gctatatgagtctgattttattgctttatcttaactcttttcactctcgaagGTTGTGTTATCTACACTTGCGTTCACAGCATTTGAACTTCCACCTAATGGGGCTATTGGAACTAGGATTTTGGAGTTCCTTTTCCACTCAAGACCTGATT
|||| | | ||| |||| | | | ||| ||||| | | | | ||| | ||| || | || || | |||| | ||||||||| | ||||| | || || || || ||||||||||| || ||||| ||| ||||||| | |||||||| |||||||||||||| || ||||||
attggattattatatttagttgtttattctttataaatt-gttctagaacttgtaaggaaagtactaatttcttcttcaatatttaaaaa---cacttttgaagGTTGTACTGTCTACTTTAGCATTTACTGCTTTTGAACTTCCTCCAAATGGAGCTGTTGGAACAAAAATTTTGGAATTCCTTTTCCACTCTAGGCCTGATCMapped 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|161706912|gb|FC056800.1|FC056800EST: CACGTCTACAGGCTCTTGCAAAATTTGCTTTTGGCATGGGATTGACTCAG GTTGTGTTATCTACACTTGCGTTCACAGCATTTGAACTTCCACCTAATGGG
genomic: CACGTCTACAGGCTCTTGCAAAATTTGCTTTTGGCATGGGATTGACTCAGgtaagatgtt ... actctcgaagGTTGTGTTATCTACACTTGCGTTCACAGCATTTGAACTTCCACCTAATGGG
atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.aatgctatatgagtctgattttattgctttatcttaactcttttcactctcgaagGTTGTGTTATCTACACTTGCGTTCACAGCATTTGAACTTCCACCTAATGGGGCTATTGGAACTAGGATTTTGGAGTTCCTTTTCCACTCAAGACCTGATT
tcttaac putative branch site (score: 2)
ctcttttcactctc CT-rich tract
attttattgctttat 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
atgctattttctcaagtggtttttccaaattgtattcattctatgaatgctatatgagtctgattttattgctttatcttaactcttttcactctcgaagGTTGTGTTATCTACACTTGCGTTCACAGCATTTGAACTTCCACCTAATGGGGCTATTGGAACTAGGATTTTGGAGTTCCTTTTCCACTCAAGACCTGATT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TTGGAG
- - - - - - - - - - - - ccaaatt
- - - - - - - - - - - - - - - - - - - - - - gaatgct