Sequence
atgc intronic sequence ATGC exonic sequence...atggtctaatattcatcatattgtctcagtgcgaccctgcaaaatatagctctgtggtgatcattgtgatgataatgtcttagttgttaaactcatgcagGTTTTGGTCGAATTGGAAGGTTGGTTTTACGAGTAGCAACCTCTAGGGATGATATTGATGTGGTAGCAGTCAATGATCCATTTGTTGATGCCAAATACAT
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: Vv19s0085g00600.t01 (Vitis vinifera), 3'ss of exon 4
lower sequence: GLYMA16G09020.1 (Glycine max), 3'ss of exon 4
atggtctaatattcatcatattgtctcagtgcgaccctgcaaaatatagctctgtggtgatcat-tgtgatgata-atgtcttagttgttaaactcatgcagGTTTTGGTCGAATTGGAAGGTTGGTTTTACGAGTAGCAACCTCTAGGGATGATATTGATGTGGTAGCAGTCAATGATCCATTTGTTGATGCCAAATACAT
||| || | || || || |||| || || | | | |||| || || |||| | | ||||||||||||| | |||||||||||||| ||||| ||||| || || | |||||| ||||||| || ||| | |||||||||||| ||||||| ||||| ||
--ggttatattgaagatgaaaaaacttggtttttgaatggaaaacttattcatggattttttctgtgtgtctttagataacttacatatgcttaatgtgcagGTTTTGGTAGGATTGGAAGGTTGGTGTTACGTGTAGCTACTTCCCGAGATGATGTTGATGTTGTTGCAATTAATGATCCATTTATTGATGCAAAATATAT
upper sequence: Vv19s0085g00600.t01 (Vitis vinifera), 3'ss of exon 4
lower sequence: GLYMA03G22790.1 (Glycine max), 3'ss of exon 4
atggtctaatattcatcatattgtctcagtgcgaccctgcaaaatatagctctgtggtgatcattgtgatgataatgtcttagttgttaaactca----tgcagGTTTTGGTCGAATTGGAAGGTTGGTTTTACGAGTAGCAACCTCTAGGGATGATATTGATGTGGTAGCAGTCAATGATCCATTTGTTGATGCCAAATACAT
| || | | | |||| | || | | || | | | || | | | | ||||| | | ||| || | ||||||||||||| |||||||||||||||| ||||| ||||| || | | |||||| ||||||| || ||| | |||||||||||| ||||||| ||||| ||
---ttttagaacggaaaactttgttttagaatggaaagcttattcatggaattcttctgtttgtcttta-gataacttacatatacttatgcttaaatgtgcagGTTTTGGTAGAATTGGAAGGTTGGTGTTACGTGTAGCTACTTTCCGAGATGATGTTGATGTTGTTGCAATTAATGATCCATTTATTGATGCGAAATATAT
upper sequence: Vv19s0085g00600.t01 (Vitis vinifera), 3'ss of exon 4
lower sequence: AT1G79530.1 (Arabidopsis thaliana), 3'ss of exon 4
---------------------------------atggtctaatat--tcatcatattgtctcagtgcgaccctgcaaaatatagctctgtggtgatcattgtg-atgataatgtcttagttgttaaactcatgcagGTTTTGGTCGAATTGGAAGGTTGGTTTTACGAGTAGCAACCTCTAGGGATGATATTGATGTGGTAGCAGTCAATGATCCATTTGTTGATGCCAAATACAT
||| | || |||| || | || | | | | | | | || || | | | || |||| || | | | ||||||||||||||| |||||||||||||| | || | ||||| || |||||||||||||| || |||||||| ||||| ||||| |||||||||| |||||
gtatgtgcttttattgattgatgccatttgtttgaagtcccagatcatcatttactttcttaagaattttcttttaggcccccaactttttccgtttcttatggaagctcatttcttttttctgtgagtgctgcagGTTTTGGTCGGATTGGAAGGTTGGTCCTCCGCATTGCAACATCAAGGGATGATATTGAGGTTGTAGCAGTGAATGACCCATTCATTGATGCCAAGTACAT
upper sequence: Vv19s0085g00600.t01 (Vitis vinifera), 3'ss of exon 4
lower sequence: AT1G16300.1 (Arabidopsis thaliana), 3'ss of exon 4
--------------------------------atggtctaatattcatcatattgtctcagtgcgaccctgcaaaatatagctctgtggtgatcattgtgatgataatgtct-tagttgttaaactc-atgcagGTTTTGGTCGAATTGGAAGGTTGGTTTTACGAGTAGCAACCTCTAGGGATGATATTGATGTGGTAGCAGTCAATGATCCATTTGTTGATGCCAAATACAT
| || || ||||| || || | | | || | | ||| || | | | | | | ||| || || || || | | |||||||||||||||||||||| ||||| | || | ||||||| |||||||||||| || || ||||||||||| |||||||| | |||||||| |||||
gtattttttgtttccattgctggattcattttgaaattcaacat-catcagatagttt-attccgtctgacttgcttctagtcctctaccttttcatttcttattgatgactgtattttatatgtgcgagacagGTTTTGGTCGAATTGGAAGATTGGTCCTCCGCATCGCAACCTTTAGGGATGATATCGAGGTTGTAGCAGTCAACGATCCATTCATAGATGCCAAGTACATMapped 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|71863317|gb|DT012372.1|DT012372EST: AGTCATGGAGCAGTGGGCAGACAAAGATTGGAATCAATG GTTTTGGTCGAATTGGAAGGTTGGTTTTACGAGTAGCAACCTCTAGGGATG
genomic: AGTCATGGAGCAGTGGGCAGACAAAGATTGGAATCAATGgtgtgttttc ... actcatgcagGTTTTGGTCGAATTGGAAGGTTGGTTTTACGAGTAGCAACCTCTAGGGATG
atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.atagctctgtggtgatcattgtgatgataatgtcttagttgttaaactcatgcagGTTTTGGTCGAATTGGAAGGTTGGTTTTACGAGTAGCAACCTCTAGGGATGATATTGATGTGGTAGCAGTCAATGATCCATTTGTTGATGCCAAATACAT
atgataat 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
atggtctaatattcatcatattgtctcagtgcgaccctgcaaaatatagctctgtggtgatcattgtgatgataatgtcttagttgttaaactcatgcagGTTTTGGTCGAATTGGAAGGTTGGTTTTACGAGTAGCAACCTCTAGGGATGATATTGATGTGGTAGCAGTCAATGATCCATTTGTTGATGCCAAATACAT
- - - - - - - - - - -tgtctca
- - - - - - - - - - - - - - - - - ccctgca
- - - - - - - - - - - - - - - - - - - - -aaatata
- - - - - - - - - - - - - - - - - - - - - - - - - - tgtggtg