Sequence
atgc intronic sequence ATGC exonic sequence...aaggactttgccctttacttgattcttgagtgattggattgtcaagtctttggaattctttatttgtttattttcctgacatagtttagtatcaatgcagGTTTCTTCTTCCAGCATCACTTATTGTTATCAATGATATTGCTGCTTATATCTTTG
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: Vv00s0598g00010.t01 (Vitis vinifera), 3'ss of exon 5
lower sequence: GLYMA10G32660.2 (Glycine max), 3'ss of exon 5
aaggactttgccctttacttgattcttgagtgattggattgtcaagtctttggaattctttatt-tgtttattttcctgacatagtttagtatcaat---gcagGTTTCTTCTTCCAGCATCACTTATTGTTATCAATGATATTGCTGCTTATATCTTTG--------------------------------------------
|||| || || || | || | | | ||||| | || ||||| ||| || || || || | || | | | || |||||||||||| |||||| |||||||||| || |||||||||||||||||||||||||
-taatgtttgaccattgct-attatacgaataa--gacttgtcctgcacttttgcttcttaattgcattgatgttaatgtctagtatttggacctattgtacagGTTTCTTCTCCCAGCAACACTTATTGTCATTAATGATATTGCTGCTTATATCTTTGGTTTCTTCTTTGGAAGAACCCCTTTGATCAAGTTATCTCCAAAG
upper sequence: Vv00s0598g00010.t01 (Vitis vinifera), 3'ss of exon 5
lower sequence: GLYMA20G34940.1 (Glycine max), 3'ss of exon 5
-aaggactttgccctttacttgattcttgagtgat-tggattgtcaagtctttggaattctttatttgtttattttcctgacatagtttagtat-caatgcagGTTTCTTCTTCCAGCATCACTTATTGTTATCAATGATATTGCTGCTTATATCTTTG--------------------------------------------
||| | | ||| || | || || | ||| |||| |||| | |||| || | | ||| | | | |||||||||||| |||||| |||||||||| || ||||| |||||||||||||||||||
gtttgaccattgctattatacgaataagacctgtcatgcactgttgcttctt---aattgcattgatgttaatgtcttgcttgcattttgacctactgtacagGTTTCTTCTCCCAGCAACACTTATTGTCATTAATGACATTGCTGCTTATATCTTTGGTTTCTTCTTTGGAAGAACCCCTTTGATTAAGTTATCTCCAAAG
upper sequence: Vv00s0598g00010.t01 (Vitis vinifera), 3'ss of exon 5
lower sequence: AT4G22340.3 (Arabidopsis thaliana), 3'ss of exon 4
----------------------------aaggactttgccctttacttgattcttgagtgattggattgtcaagtctttggaattctttatttgtttattttcctgacatagtttagtatcaatgcagGTTTCTTCTTCCAGCATCACTTATTGTTATCAATGATATTGCTGCTTATATCTTTG--------------------------------------------
| ||||| | | || |||||| || ||| | | |||| | || | | | | | ||| | | ||||||||||||||||| ||||||||||| || |||||||| || ||| ||||||| ||
gtagtcacctattccttttaacgcttcttacttgtttgctccgtgtttagttcttgtgttattttctc-ttgtatcttggttatgacctgactaaaagtctatttactata-ctggttgctggtgcagGTTTCTTCTTCCTGCATCACTTATCGTCATCAATGACATATTTGCATATATCTGTGGTTTCTTCTTTGGAAGAACACCGTTGATCAAGTTATCACCAAAGMapped 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|110722646|gb|EE099052.1|EE099052EST: TTTACCCAGTCTGCCTTCACCGTGGCCAACATTTTTGAAAGAATTTTCTG GTTTCTTCTTCCAGCATCACTTATTGGTATCAATGATATTGCTGCTTATAT
genomic: TTTACCCAGTCTGCCTTCACCGTGGCCAACATTTTTGAAGGAATTTTCTGgtaaaacaac ... atcaatgcagGTTTCTTCTTCCAGCATCACTTATTGTTATCAATGATATTGCTGCTTATAT
EST:
gi|32269792|gb|CD718951.1|CD718951EST: TTTACCCAGTCTGCCTTCACCGTGGCCAACATTTTTGAAGGA-TTTTCTG GTTTCTTCTTC-AGCATCACTTATTGTTATCAATG
genomic: TTTACCCAGTCTGCCTTCACCGTGGCCAACATTTTTGAAGGAATTTTCTGgtaaaacaac ... atcaatgcagGTTTCTTCTTCCAGCATCACTTATTGTTATCAATG
atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.gtctttggaattctttatttgtttattttcctgacatagtttagtatcaatgcagGTTTCTTCTTCCAGCATCACTTATTGTTATCAATGATATTGCTGCTTATATCTTTG
tcctgac putative branch site (score: 2)
aattctttatttgttt 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
aaggactttgccctttacttgattcttgagtgattggattgtcaagtctttggaattctttatttgtttattttcctgacatagtttagtatcaatgcagGTTTCTTCTTCCAGCATCACTTATTGTTATCAATGATATTGCTGCTTATATCTTTG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TGCTGC
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GCTGCT
- - - - tgccctt
- - - - - - - - - - - - - - - tgattgg
- - - - - - - - - - - - - - - - - - - - -tcaagtc