Sequence
atgc intronic sequence ATGC exonic sequence...cactgaattacttgtcatgcttcagttcaagaagttatcagacctaaagtagcctcttataaaaaaaaaatattaagatgcttttcctttgtatctgtagGTATATACTGTCCACAGCTTTTTCAACAACTTCGGCATTAACAGATTTGAGCAGTGTATTCTATTCACTTATCTATACCTCCATCCCTACCATTGTTGTT
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: Vv08s0058g01400.t01 (Vitis vinifera), 3'ss of exon 5
lower sequence: LOC_Os03g21680.3 (Oryza sativa), 3'ss of exon 6
cactgaattacttgtcatgcttcagttcaagaagttatcagacctaaagtagcctcttataaaaaaaaaatattaagatgcttttcctttgtatctgtagGTATATACTGTCCACAGCTTTTTCAACAACTTCGGCATTAACAGATTTGAGCAGTGTATTCTATTCACTTATCTATACCTCCATCCCTACCATTGTTGTT
| | | | ||| | | || | | | | | ||| || |||||||||| ||| || || |||||||| || ||||| | ||| ||||| ||||||||||||| ||| ||||| |||||||| ||||||||||| || || || || | || |||
--gtacacattctaccccctgctcattcttgtatttgtaatttcaattgaagct--------aacaaaaatattactatgtgattttttc--------agGTATATCTTGCATACAGCATATTCTGCAACTCTTGCATTAACAGATTGGAGTAGTGTTTTCTATTCCCTTATCTATACGTCAATTCCCACAGTGGTAGTT
upper sequence: Vv08s0058g01400.t01 (Vitis vinifera), 3'ss of exon 5
lower sequence: GRMZM2G398288_T01 (Zea mays), 3'ss of exon 5
cactgaattacttgtcatgcttcagttcaagaagttatcagacctaaagtagcctcttataaaaaaaaaatattaagat---gctt-ttcctttgtatctgtagGTATATACTGTCCACAGCTTTTTCAACAACTTCGGCATTAACAGATTTGAGCAGTGTATTCTATTCACTTATCTATACCTCCATCCCTACCATTGTTGTT
| | || |||| || || || | || | | ||| | | | |||| | | | || | | || || | | | | ||||||||||| || | || |||| ||| ||||| |||||||||||||| ||||||||| |||||||| ||||| || || || | || || | || |||
-ctttcagtagttgttccctttgagatccatcagagttta---ctagtaaaatcacatatatcttgattttctgaaagtttggtttatttcctcatctgtgtagGTATATCCTATATACGGCTTATTCTGCAACTCTGGCATTAACAGATTGGAGCAGTGTTTTCTATTCCCTTATATACACATCAGTTCCAACGGTAGTAGTT
upper sequence: Vv08s0058g01400.t01 (Vitis vinifera), 3'ss of exon 5
lower sequence: GLYMA16G34610.1 (Glycine max), 3'ss of exon 5
cactgaattacttgtcatgcttcagttcaagaagttatcagaccta---aagtagcc----tcttataaaaaaaaaat-attaagatgct-tttcctttgtatctgtagGTATATACTGTCCACAGCTTTTTCAACAACTTCGGCATTAACAGATTTGAGCAGTGTATTCTATTCACTTATCTATACCTCCATCCCTACCATTGTTGTT
| || | ||| ||| |||| | || || || || ||| | |||| ||| | | ||| ||||| | || | | |||||||||||||| | | ||| |||||||| |||||||| ||||||||||||| ||| |||||||| ||||| | || || || || |||||||| || ||||||
--------caattcttgggct-cagcgatagaactcatttgatttatataaatagttgagattttatgaaattttattcattctaatgctgtgtcttccttgtctgtagGTATATATTATGCACTGCTTTTTCTACAACTTCTGCATTAACAGATTGGAGTAGTGTATTTTATTCTGTGATATACACATCTATCCCTACTATCGTTGTTMapped 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|122688979|gb|EC928082.1|EC928082EST: GTTCTTTACAACTTCTACCGCAATGCTGTTTTTGTTTTGATGCTATTCTG GTATATACTGTCCACAGCTTTTTCAACAACTTCGGCATTAACAGATTTGAG
genomic: GTTCTTTACAACTTCTACCGCAATGCTGTTTTTGTTTTGATGCTATTCTGgtatttatga ... gtatctgtagGTATATACTGTCCACAGCTTTTTCAACAACTTCGGCATTAACAGATTTGAG
atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.aaagtagcctcttataaaaaaaaaatattaagatgcttttcctttgtatctgtagGTATATACTGTCCACAGCTTTTTCAACAACTTCGGCATTAACAGATTTGAGCAGTGTATTCTATTCACTTATCTATACCTCCATCCCTACCATTGTTGTT
acctaaa putative branch site (score: 3)
cttttcctttgtatct putative PPT
ttataaaaaaaaaata 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
cactgaattacttgtcatgcttcagttcaagaagttatcagacctaaagtagcctcttataaaaaaaaaatattaagatgcttttcctttgtatctgtagGTATATACTGTCCACAGCTTTTTCAACAACTTCGGCATTAACAGATTTGAGCAGTGTATTCTATTCACTTATCTATACCTCCATCCCTACCATTGTTGTT
cactgaa
- - - - - - - tcatgct
- - - - - - - - - - - - - tcaagaa
- - - - - - - - - - - - - - - - - - - - -acctaaa
- - - - - - - - - - - - - - - - - - - - - - - - - -gcctctt
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - aaaaaaa