Sequence
atgc intronic sequence ATGC exonic sequence...gtcatgttcttatccgagtttttgaggaatttattgacaaggggttgtcaccttgagttttttcattttttgttaacttaatctttggttctaaattcagGCACCTTTCTGGCATTGGGAAAGAAGAGAGGCGATCTCAAGACTCTATGGACAAAAGGAGAACCCGAAAGGCCATGCCCGCACATCCAACCTTCTCAATA
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: Vv15s0046g02460.t01 (Vitis vinifera), 3'ss of exon 13
lower sequence: GLYMA03G01100.1 (Glycine max), 3'ss of exon 13
gtcatgttcttatc-cgagtttttgaggaatttattgacaaggggttgtcaccttgagttttttcattttttgttaacttaatctttggttctaaattcagGCACCTTTCTGGCATTGGGAAAGAAGAGAGGCGATCTCAAGACTCTATGGACAAAAGGAGAACCCGAAAGGCCATGCCCGCACATCCAACCTTCTCAATA
| || || | || || | | | | | || || || | ||| | | | | |||| | |||| || ||||||||||||| || |||||||||| |||||||| || ||||||| | ||||||||| ||| ||||| ||||||| ||||| || |||||| | | |
attgctttgataaaactgattgctgttggtctaccagcccaaggactgacatagtagacatttaggtactgcatgacattaaaatctggtccttt-ttcagGCACCTTTTTGTCATTGGGAAAAAAGAGAGGGGAGCTCAAGATTTTATGGACAAGAGGGGAACCAGAAAGGCATTGCCCTCATATCCAAGAGGATAACCA
upper sequence: Vv15s0046g02460.t01 (Vitis vinifera), 3'ss of exon 13
lower sequence: GLYMA07G07610.1 (Glycine max), 3'ss of exon 14
gtcatgttcttatccgagtttttgaggaatttattgacaaggggttgtcaccttgagttttttcatttt-ttgttaacttaatctttggttc-taaattcagGCACCTTTCTGGCATTGGGAAAGAAGAGAGGCGATCTCAAGACTCTATGGACAAAAGGAGAACCCGAAAGGCCATGCCCGCACATCCAACCTTCTCAATA
| | | || | ||| | | ||| | | | | || |||| || ||| | || | | || ||||| ||||||||||| || |||||||||| |||||||| || ||||||| | ||||||||| ||| ||||| ||||||| || || || |||||| | | |
--tgggctaccagcccaaggactgacatagtagacatttaggtacagcatgacaaaatctggtccttttgctgcaaaccttattctggaatcataaatgcagGCACCTTTTTGTCATTGGGAAAAAAGAGAGGGGAGCTCAAGATTTTATGGACAAGAGGGGAACCAGAAAGGCATTGTCCTCATATCCAAGAGGATAACCA
upper sequence: Vv15s0046g02460.t01 (Vitis vinifera), 3'ss of exon 13
lower sequence: GLYMA09G39500.1 (Glycine max), 3'ss of exon 13
gtcatgttcttatccgagtttttgagga---atttattgacaaggggttgtcaccttgagttttttcattttttgttaactt----aatctttggttctaaattcagGCACCTTTCTGGCATTGGGAAAGAAGAGAGGCGATCTCAAGACTCTATGGACAAAAGGAGAACCCGAAAGGCCATGCCCGCACATCCAACCTTCTCAATA
|||||| |||||| | | || || || || | ||| | || | | | || || ||| || | || | |||| ||||||||| ||||||||||||||||||| || |||||| | ||||||||| ||| ||||| ||| || ||||| ||||||||| |||||
-------ctttatccatgttttttggtatagatataacttaaattagtatagagctttatccattaaaactggtacgaatttttgaaatgcttttctgtatttgcagGAACCTTTCTGTCATTGGGAAAGAAGAGAGGTGAACTCAAGGTTTTATGGACAAGAGGGGAACCAAAAATACCTTGCCCTCACATCCAAGAGGATCAATC
upper sequence: Vv15s0046g02460.t01 (Vitis vinifera), 3'ss of exon 13
lower sequence: GLYMA18G46760.1 (Glycine max), 3'ss of exon 13
----gtcatgttcttatccgagtttttgaggaatttattgacaaggggttgtcaccttgagttttttcattttttgttaacttaatctttggttctaaattcagGCACCTTTCTGGCATTGGGAAAGAAGAGAGGCGATCTCAAGACTCTATGGACAAAAGGAGAACCCGAAAGGCCATGCCCGCACATCCAACCTTCTCAATA
| || | | || | ||||| || | || | || | || ||| | | || || | || | || || | | |||| |||||| || ||||||||||||||||||| || |||||| | ||||||||| ||| ||||| ||| || ||||| ||||||||| |||||
aagctttatccatgttttttggtatagatataatttctttagtagagctt-tatccatgaaaactagtaccagtttttgaaatacttttctgtatt---tgcagGAACCTTTTTGTCATTGGGAAAGAAGAGAGGTGAACTCAAGGTTTTATGGACAAGAGGGGAACCAAAAATACCTTGCCCTCACATCCAAGAGAATCAATCMapped 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|110401255|gb|EC967858.1|EC967858EST: GGATGGGCATGGCCAACCAGCTCTACTCTACATTGTTCCATTCACACTCG GCACCTTTCTGGCATTGGGAAAGAAGAGAGGCGATCTCAAGACTCTATGGA
genomic: GGATGGGCATGGCCAACCAGCTCTACTCTACATTGTTCCATTCACACTCGgtatgtagtg ... ctaaattcagGCACCTTTCTGGCATTGGGAAAGAAGAGAGGCGATCTCAAGACTCTATGGA
EST:
gi|110369217|gb|EC933370.1|EC933370EST: GGATGGGCATGGCCAACCAGCTCTACTCTACATTGTTCCATTCACACTCG GCACCTTTCTGGCATTGGGAAAGAAGAGAGGCGATCTCAAGACTCTATGGA
genomic: GGATGGGCATGGCCAACCAGCTCTACTCTACATTGTTCCATTCACACTCGgtatgtagtg ... ctaaattcagGCACCTTTCTGGCATTGGGAAAGAAGAGAGGCGATCTCAAGACTCTATGGA
atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.tgtcaccttgagttttttcattttttgttaacttaatctttggttctaaattcagGCACCTTTCTGGCATTGGGAAAGAAGAGAGGCGATCTCAAGACTCTATGGACAAAAGGAGAACCCGAAAGGCCATGCCCGCACATCCAACCTTCTCAATA
ttctaaa putative branch site (score: 2)
ttttttcattttttgt 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gtcatgttcttatccgagtttttgaggaatttattgacaaggggttgtcaccttgagttttttcattttttgttaacttaatctttggttctaaattcagGCACCTTTCTGGCATTGGGAAAGAAGAGAGGCGATCTCAAGACTCTATGGACAAAAGGAGAACCCGAAAGGCCATGCCCGCACATCCAACCTTCTCAATA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGGAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGGAGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GGAGAA
- catgttc
- - - - - - - - - - - - - - - - - - - - ggggttg
- - - - - - - - - - - - - - - - - - - - - - - - caccttg