Sequence
atgc intronic sequence ATGC exonic sequence...taaactagatcttctattgcaacctattcattctttcttctcttgatttcatttttggtagtttttaccccattccttacttatgttctatttattgcagACCTACTTGCAATCTATCACTGTGAGGCTTGAGGAGTGGAGGCTCAAGCGAAGAGACACAGAGGAATGGATGAGACACCGTCAACTACCTCAAGATCTGC
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: Vv04s0069g00790.t01 (Vitis vinifera), 3'ss of exon 5
lower sequence: LOC_Os02g54760.1 (Oryza sativa), 3'ss of exon 5
taaactagatcttctattgcaacctattcattctttcttctcttgatttcattt---ttggtagtttttaccccattccttacttatgttctatttattgcagACCTACTTGCAATCTATCACTGTGAGGCTTGAGGAGTGGAGGCTCAAGCGAAGAGACACAGAGGAATGGATGAGACACCGTCAACTACCTCAAGATCTGC
| || | | || || | || || | || | ||| | |||| | | || ||| | |||||| || |||||||||||||||||||||||||||||| ||||||| ||||| | || | |||||| |||||||| |||||||| || |||||||| || || || || |
------------------gtaatttttaaatgtttagtgatcatgtctacactacgattgattcttttggcacttttttatacactgctactattt-ttccagACCTACTTGCAATCTATCACTGTGAGGGTTGAGGAATGGAGATTAAAACAAAGAGATACAGAGGAGTGGATGAGGCATCGTCAACTCCCACATGAACTAC
upper sequence: Vv04s0069g00790.t01 (Vitis vinifera), 3'ss of exon 5
lower sequence: LOC_Os06g08850.1 (Oryza sativa), 3'ss of exon 5
-----taaactag-atcttctattgcaacctattca-ttctttcttctcttgatttcatttttggtagtttttaccccattccttacttatgttctatttattgcagACCTACTTGCAATCTATCACTGTGAGGCTTGAGGAGTGGAGGCTCAAGCGAAGAGACACAGAGGAATGGATGAGACACCGTCAACTACCTCAAGATCTGC
|| ||||| | | | ||| |||||| || ||| | | || ||| | | | || | | ||| | | | | | ||| | |||||||| ||||||||||||||| || ||||||||||||| | |||| |||||| || || ||||||||||| || || ||||| ||||| | ||
atgattatactagtaaataccattacaacctcttagcttcaaaggcgtacataattttctttaagaaatattgagctcatcacat-----tatattgtttgct--agACCTACCTGCAATCTATCACTGCAAGAGTTGAGGAGTGGAGAATAAAGCAAAGAGATACGGAAGAATGGATGAGGCATCGGCAACTTCCTCAGAAACTAA
upper sequence: Vv04s0069g00790.t01 (Vitis vinifera), 3'ss of exon 5
lower sequence: GRMZM2G005791_T01 (Zea mays), 3'ss of exon 4
---------------------------------taaactagatcttctat-tgcaacctattcattctttcttctcttgatt--tcatttttg--gtagtttttaccccattccttacttatgttctatttattgc--agACCTACTTGCAATCTATCACTGTGAGGCTTGAGGAGTGGAGGCTCAAGCGAAGAGACACAGAGGAATGGATGAGACACCGTCAACTACCTCAAGATCTGC
| || || ||| || | | || || || ||| | ||| | | ||||| || ||| | | | | | | ||||| |||||||| |||||||||| ||||||||| ||||||| ||||| | |||| |||||| || ||||||||||||||||| ||||| || ||| || ||||
gtactttttatccactctactgcatactttatattgtacaggctttttatatgtgaacaata-atactcgctttggataatttattaattttgacataatttggaattttctgtcttacaacatgatgattattatcaagACCTACCTGCAATCTATTACTGTGAGGGTTGAGGAATGGAGATTAAAGCAAAGAGATACTGAGGAATGGATGAGACATCGTCAGCTTCCTTGTGAACTGC
upper sequence: Vv04s0069g00790.t01 (Vitis vinifera), 3'ss of exon 5
lower sequence: GLYMA06G08170.1 (Glycine max), 3'ss of exon 7
-taaactagatcttctattgcaacctattcattctttcttctcttgatttcatttttggtagtttttaccccattccttacttatgttctatttattgcagACCTACTTGCAATCTATCACTGTGAGGCTTGAGGAGTGGAGGCTCAAGCGAAGAGACACAGAGGAATGGATGAGACACCGTCAACTACCTCAAGATCTGC
| | | ||| | || | ||| || | |||| | | || ||| | | || ||||| ||| | |||||||||| |||||||| || |||||||||||||| |||||||||||||||||| | ||||| || || |||||||| || || || || || ||| ||||
gaacttttcaacttttgttttatggcatt-gttgactagaaccttgtcagaactaagtatataatttggtgaaacacctaagcatgttgaattcaatgcagACCTATTTGCAATCCATTACTGTGAGGCTTGAAGAGTGGAGGCTCAAGCGACGTGACACTGAAGAGTGGATGAGCCATCGCCAGCTCCCACAAAATCTCAMapped 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|110428540|gb|EC995015.1|EC995015EST: TCGCCATCTTGGGCCTGGTTCTGTTTGCTCATTTAATCGGAAACATGCAG ACCTACTTGCAATCTATCACTGTGAGGCTTGAGGAGTGGAGGCTCAAGCGA
genomic: TCGCCATCTTGGGCCTGGTTCTGTTTGCTCATTTAATCGGAAACATGCAGgtatttggga ... tttattgcagACCTACTTGCAATCTATCACTGTGAGGCTTGAGGAGTGGAGGCTCAAGCGA
atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.atttcatttttggtagtttttaccccattccttacttatgttctatttattgcagACCTACTTGCAATCTATCACTGTGAGGCTTGAGGAGTGGAGGCTCAAGCGAAGAGACACAGAGGAATGGATGAGACACCGTCAACTACCTCAAGATCTGC
tccttac putative branch site (score: 2)
ttctattt putative PPT
ttatgttctatttatt 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
taaactagatcttctattgcaacctattcattctttcttctcttgatttcatttttggtagtttttaccccattccttacttatgttctatttattgcagACCTACTTGCAATCTATCACTGTGAGGCTTGAGGAGTGGAGGCTCAAGCGAAGAGACACAGAGGAATGGATGAGACACCGTCAACTACCTCAAGATCTGC
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGAGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGAGGA
-aaactaga
- - - - - - - - - -caaccta