Sequence
atgc intronic sequence ATGC exonic sequencegtgagattattttctgtcaaaagtactattttttttccgggttttcaccaatttattgatctgaatgattggttttcgcatttagGCGGATCTTGTTGGAGGATATTATGATGCAGGAGACAATGTGAAGTATGGGCTTCCCATGGCTTTCACTGTTACCACTCTTTCATGGTCAGCTATCTTTT
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: Vv04s0008g02020.t01 (Vitis vinifera), 3'ss of exon 1
lower sequence: GLYMA06G05930.1 (Glycine max), 3'ss of exon 1
-------------------------gtgagattattttctgtcaaaagtactattttttttccgggtt--ttcacca-atttattgatctgaatgattggttttcgcatttagGCGGATCTTGTTGGAGGATATTATGATGCAGGAGACAATGTGAAGTATGGGCTTCCCATGGCTTTCACTGTTACCACTCTTTCATGGTCAGCTATCTTTT
||| | || | | | | | | || | || | | || | | | || || || |||| ||| |||| ||| ||||| ||||||||||| ||||| ||||| ||||||||||||||||||||||| ||||| || || ||||| ||| || ||||
gtacatatctttctatctcttaaaaacacatatatacacaaattaacatgcaaagagaatgatagaataatttgtgatatcttatcatataattaatattaatttatatatagGTGGACCTTGCTGGGGGATACTATGATGCAGGGGACAACGTGAAATATGGGCTTCCCATGGCTTTCACCGTTACTACGCTAGCATGGGGAGCCATTTTTT
upper sequence: Vv04s0008g02020.t01 (Vitis vinifera), 3'ss of exon 1
lower sequence: GLYMA06G05950.1 (Glycine max), 3'ss of exon 1
-------------------------------gtgagattattttctgtcaaaagtactattttttttccgggttttcaccaatttattgatctgaatgattggttttcgcatttagGCGGATCTTGTTGGAGGATATTATGATGCAGGAGACAATGTGAAGTATGGGCTTCCCATGGCTTTCACTGTTACCACTCTTTCATGGTCAGCTATCTTTT
| | ||| | |||| | | | | ||| | |||| || | | | || || || |||| ||| |||| ||| ||||| ||||||||||| ||||| ||||| |||||||| |||||||||||||| ||||| || || ||||| ||| || ||||
gtacatatctttctatctcttaaaaacacatataaacaaattaacatgcaaagagaatgatagaat----aatttgtgatatcttatc-atataattaatattaatttatatatagGTGGACCTTGCTGGGGGATACTATGATGCAGGGGACAACGTGAAATATGGGCTCCCCATGGCTTTCACCGTTACTACGCTAGCATGGGGAGCCATTTTTT
upper sequence: Vv04s0008g02020.t01 (Vitis vinifera), 3'ss of exon 1
lower sequence: AT3G43860.1 (Arabidopsis thaliana), 3'ss of exon 1
gtgagattattttctgtcaaaagtactattttttttc---cgggttttcaccaatttattgatctgaatgattggttttcgcatttagGCGGATCTTGTTGGAGGATATTATGATGCAGGAGACAATGTGAAGTATGGGCTTCCCATGGCTTTCACTGTTACCACTCTTTCATGGTCAGCTATCTTTT
|| || ||| || | | | || || | ||| || | ||| | | | ||| | | | |||| ||| | |||||| || ||||| ||||||||||||||||||||||| ||||| ||||| ||||| | || || ||| | ||||| | || |
gtaagtttaggttatattacaaataatgtttattcataaatcagattttaaggttacaaaagataatgagataattatgtatgtatagGTGGACTTGTCTGGAGGGTACTATGACGCAGGAGACAATGTGAAGTATGGTCTTCCAATGGCGTTCACGATCACAACGCTTGCTTGGTCCACAATTACCTMapped 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|122689427|gb|EC939263.1|EC939263EST: GGCTACCTTGGAGAGGAGACTCGGCTCTTGAGGATGGAAAACTCGTAAAT GCGGATCTTGTTGGAGGATATTATGATGCAGGAGACAATGTGAAGTATGGG
genomic: GGCTACCTTGGAGAGGAGACTCGGCCCTTGAGGATGGAAAACTCGTAAATgtgagattat ... tcgcatttagGCGGATCTTGTTGGAGGATATTATGATGCAGGAGACAATGTGAAGTATGGG
atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.ttttttccgggttttcaccaatttattgatctgaatgattggttttcgcatttagGCGGATCTTGTTGGAGGATATTATGATGCAGGAGACAATGTGAAGTATGGGCTTCCCATGGCTTTCACTGTTACCACTCTTTCATGGTCAGCTATCTTTT
tattgat putative branch site (score: 3)
ttttcgc putative PPT
aatttattgat 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gtgagattattttctgtcaaaagtactattttttttccgggttttcaccaatttattgatctgaatgattggttttcgcatttagGCGGATCTTGTTGGAGGATATTATGATGCAGGAGACAATGTGAAGTATGGGCTTCCCATGGCTTTCACTGTTACCACTCTTTCATGGTCAGCTATCTTTT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TCAGCT