Sequence
atgc intronic sequence ATGC exonic sequencegcaagcatccttcatctactaagccttctatctattagtgatgcatctgaaacagattatttttcaattctaaattgctttgcatctattgtagGAAAATTGTGCTAGCCACAAACATTGCAGAGAGTAGTATCACCATAGATGATGTTGTATACGTCATAGACTGTGGAAAGGCAAAGGAAACAAGTTACGAT
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: Vv08s0032g01230.t01 (Vitis vinifera), 3'ss of exon 10
lower sequence: LOC_Os10g33275.2 (Oryza sativa), 3'ss of exon 10
-gcaagcatccttcatct-actaagccttctatctattagtgatgcatctgaaacagattatttttcaattctaaattgctttgcatctat----tgtagGAAAATTGTGCTAGCCACAAACATTGCAGAGAGTAGTATCACCATAGATGATGTTGTATACGTCATAGACTGTGGAAAGGCAAAGGAAACAAGTTACGAT
|| | ||| | | ||| | | | || | || | | | || | | | | || | | |||||| | | | ||||||||||| | || ||||| |||||||| || ||||| || |||||||||||||| || || || || ||||| || ||||||||||||||||| |||
gctttttatgttacatttgagctagctgtgtcttaatggctaatcctattttatttgaacaacctgtattgcttattgctgttgcatatgtatttttcagGAAAATTGTTTTGGCAACAAATATTGCAGAAAGCAGTATTACAATAGATGATGTTGTCTATGTAATTGATTGTGGCAAAGCAAAGGAAACAAGTTATGAT
upper sequence: Vv08s0032g01230.t01 (Vitis vinifera), 3'ss of exon 10
lower sequence: GRMZM2G399212_T01 (Zea mays), 3'ss of exon 12
gcaagcatccttcatctactaagccttctatctattagtgatgcatctgaaa-cagattatttttca-attctaaatt---gctttgcatcta-ttgtagGAAAATTGTGCTAGCCACAAACATTGCAGAGAGTAGTATCACCATAGATGATGTTGTATACGTCATAGACTGTGGAAAGGCAAAGGAAACAAGTTACGAT
|| | | || | |||| | | ||| || || | | | | ||| ||||| ||| | ||| | |||| | || || || |||||||| | || || |||||||| |||||||||||||| |||||||||||||| || || || || ||||| ||||| ||||| ||||| || |||
ctctttataaatggttaacaattcctttcagatcttatcgagaaattttagatccttttacttttcttattgtctattaacggtttgtttgtaatttcagAAAAATTGTTTTGGCAACCAACATTGCGGAGAGTAGTATCACTATAGATGATGTTGTCTATGTGATTGATTGTGGTAAGGCCAAGGAGACAAGCTATGAT
upper sequence: Vv08s0032g01230.t01 (Vitis vinifera), 3'ss of exon 10
lower sequence: GRMZM2G119671_T01 (Zea mays), 3'ss of exon 3
gcaagcatccttcatctactaagccttctatctattagtga-tgcatctgaaacagattatttttca-attctaaatt---gctttgcatcta-ttgtagGAAAATTGTGCTAGCCACAAACATTGCAGAGAGTAGTATCACCATAGATGATGTTGTATACGTCATAGACTGTGGAAAGGCAAAGGAAACAAGTTACGAT
|| | | || | |||| | | ||| || | | | | | ||| ||||| ||| | ||| | |||| | || || || |||||||| | || || |||||||| |||||||||||||| |||||||||||||| || || || || ||||
ctctttataaatggttaacaattcctttcagatcttatcgagtaattttagatccttttacttttcttattgtctattaacggtttgtttgtaatttcagAAAAATTGTTTTGGCAACCAACATTGCGGAGAGTAGTATCACTATAGATGATGTTGTCTATGTGATTGATTGTG--------------------------
upper sequence: Vv08s0032g01230.t01 (Vitis vinifera), 3'ss of exon 10
lower sequence: GRMZM2G052798_T01 (Zea mays), 3'ss of exon 4
-------------gcaagcatccttca----tctactaagccttctatctattagtga-tgcatctgaaacagattatttttca-attctaaattgc---tttgcatcta--ttgtagGAAAATTGTGCTAGCCACAAACATTGCAGAGAGTAGTATCACCATAGATGATGTTGTATACGTCATAGACTGTGGAAAGGCAAAGGAAACAAGTTACGAT
| | | | | | || | |||| | | ||| | | | | | | ||| ||||| ||| | ||| |||| | || || |||||||| | || || |||||| | |||||||||||||| |||||||||||||| || || || || ||||| |||||
gtttgaactaattgtagctctttataaatggttaacaattcctttcagatcttatcaagtaattttagatccttttacttttcttattgtctattaacagTTTGTTTGTAATTTCAGAAAAAATTGTTTTGGCAACCAACATTACGGAGAGTAGTATCACTATAGATGATGTTGTCTATGTGATTGATTGTGGTAAGGCC------------------
upper sequence: Vv08s0032g01230.t01 (Vitis vinifera), 3'ss of exon 10
lower sequence: GLYMA10G10180.1 (Glycine max), 3'ss of exon 12
--gcaagcatccttcatctactaag--ccttctatctattagtgatgcatctga--aacagattatttttcaattctaaattgctttgcatctattgtagGAAAATTGTGCTAGCCACAAACATTGCAGAGAGTAGTATCACCATAGATGATGTTGTATACGTCATAGACTGTGGAAAGGCAAAGGAAACAAGTTACGAT
|| | | | | | || | || | | || | | || ||| | | | | |||| | | ||| |||||| |||||||||||||| ||||| ||||| |||||||| |||||||||||||| ||||| || |||||||||||||| || |||||||| || || || |||
tatcagatgatcagtaaagatgaggggtattttgctcatatatatttgattttctcatcattttagcatctatgttttgattgttatttttctgttgtagAAAAATTGTGCTAGCAACAAATATTGCTGAGAGTAGCATCACCATAGATGACGTTGTGTATGTCATAGACTGTGGCAAAGCAAAGGAGACCAGCTATGAT
upper sequence: Vv08s0032g01230.t01 (Vitis vinifera), 3'ss of exon 10
lower sequence: GLYMA02G35240.1 (Glycine max), 3'ss of exon 13
-gcaagcatccttcatctactaagccttctatctattagtgatgcatctgaaacagattatt-----tttcaattctaaattgctttgcatctattgtagGAAAATTGTGCTAGCCACAAACATTGCAGAGAGTAGTATCACCATAGATGATGTTGTATACGTCATAGACTGTGGAAAGGCAAAGGAAACAAGTTACGAT
| |||| | || | | || | | | || || || | ||| | | | | | |||| | | || |||||| ||||| |||||||| ||||| ||||| |||||||| |||||||||||||| ||||| || ||||||||||| ||||| |||||||| || || || |||
ttataatggtcttcttatagttgactttttgctttattgtaatatataatcagatgatcagtaaagctgaggggttttgattgttattttgctgttgtagAAAAATCGTGCTAGCAACAAATATTGCTGAGAGTAGCATCACCATAGATGACGTTGTGTATGTCATAGACTGGGGAAAAGCAAAGGAGACCAGCTATGAT
upper sequence: Vv08s0032g01230.t01 (Vitis vinifera), 3'ss of exon 10
lower sequence: AT2G35920.1 (Arabidopsis thaliana), 3'ss of exon 10
gcaagcatccttcatctactaagccttctatctattagtgatgcatctgaaacagattatttttcaattctaaattgctttgcatctattgtagGAAAATTGTGCTAGCCACAAACATTGCAGAGAGTAGTATCACCATAGATGATGTTGTATACGTCATAGACTGTGGAAAGGCAAAGGAAACAAGTTACGAT
| ||| | | | ||| | | || | | | || |||| | | ||| ||||| | | || |||||||||||| || | || ||||||||||| ||||||||||| || || |||||||||||||| || | || ||||| || ||||||||||| || || |||
gttagc-cctctgagctatcgattcgtcatttcttcttttatcattctgctttgtagcaacttt----tctaagcgaatgctctgcttttgtagGAAAATAGTTTTGGCTACAAACATTGCCGAGAGTAGTATTACAATTGATGATGTTGTATATGTTGTGGATTGTGGTAAAGCAAAGGAAACTAGCTATGAT
upper sequence: Vv08s0032g01230.t01 (Vitis vinifera), 3'ss of exon 10
lower sequence: PP1S36_206V6.1 (Physcomitrella patens), 3'ss of exon 11
----gcaagc--atccttcatctactaagccttctatctattagtgatgcatctgaaacagattatttttcaattctaa-attgctttgcatct--attgtagGAAAATTGTGCTAGCCACAAACATTGCAGAGAGTAGTATCACCATAGATGATGTTGTATACGTCATAGACTGTGGAAAGGCAAAGGAAACAAGTTACGAT
| || | | | || | | | | | | |||| || || | ||| | | ||| ||| || | | || |||||||||||||||||| ||||| ||||| || |||| |||||| || || |||||||| || ||||| || || ||||| ||||||||||| ||||| || ||
tttctctagttgaacactaataaaacggacagtttctatgctagt-atacagggatatcag--cagagtctaatgctagtgctgttgaccttcctggttgtagGAAAATTGTGCTGGCCACCAACATAGCCGAGACTAGTATTACGATCGATGATGTAGTCTACGTGATTGATTGTGGGAAGGCAAAGGAGACAAGCTATGACMapped 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|37185170|gb|CF604523.1|CF604523EST: TCGACCACGCGTCCGACATGAG GAAAATTGTGCTATCCACAAACATTGCAGAGAGTAGTATCACCATAGATGA
genomic: TCGACCAC-CCTCCAACATGAGgcaagcatcc ... tctattgtagGAAAATTGTGCTAGCCACAAACATTGCAGAGAGTAGTATCACCATAGATGA
atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.gatgcatctgaaacagattatttttcaattctaaattgctttgcatctattgtagGAAAATTGTGCTAGCCACAAACATTGCAGAGAGTAGTATCACCATAGATGATGTTGTATACGTCATAGACTGTGGAAAGGCAAAGGAAACAAGTTACGAT
ttctaaa putative branch site (score: 2)
aaacagattatttttc 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gcaagcatccttcatctactaagccttctatctattagtgatgcatctgaaacagattatttttcaattctaaattgctttgcatctattgtagGAAAATTGTGCTAGCCACAAACATTGCAGAGAGTAGTATCACCATAGATGATGTTGTATACGTCATAGACTGTGGAAAGGCAAAGGAAACAAGTTACGAT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GCAAAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGGAA