Sequence
atgc intronic sequence ATGC exonic sequence...gtatctaatggactgcatattatctcttttgggagaacttaaaatggattttcttgttaatgtattgtgctttaaattaacttcttctacaagcttcaagGTTCAAAGTTGGATCAAAAGTGGCTTGAGGGACTTTTCCATTTCCCGAGCATCAGTTGAGTGGGGCATTCCTGTTCCTGATGACAAGACCCAGACTATAT
Basic information
species | Glycine max |
transcript | GLYMA20G23250.1 |
intron # | 4 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GLYMA20G23250.1 (Glycine max), 3'ss of exon 4
lower sequence: AT3G55400.1 (Arabidopsis thaliana), 3'ss of exon 3
----------------------------------gtatctaatggactgcatattatctctt-----ttgggagaacttaaaatggatttt----cttgttaatgtattgtgctttaaattaa-cttcttctacaagcttca--------agGTTCAAAGTTGGATCAAAAGTGGCTTGAGGGACTTTTCCATTTCCCGAGCATCAGTTGAGTGGGGCATTCCTGTTCCTGATGACAAGACCCAGACTATAT
| || || | | ||||| | | | || | || | | |||| | || ||| | || | | |||| | | ||||| || || |||| ||||||||||| || |||||||| || || ||||||||||| ||||||| ||| || ||||| ||||||||||| || ||| | | || || ||||
gtgagacacattctttgaagttctcttccttgtagcattcaa-gtagtgcatgtgaacctttggtgatacagattattcaaaagaaaacagagagttttttattatagctcattctttcttaatccttttctaatagtctctttttttgtagGTACAAAGTTGGATAAAGAGTGGCTTAAGAGATTTTTCCATTTCTCGAGCATTAGTGGATTGGGGAATTCCTGTTCCCGACGACGATAAGCAAACCATAT
upper sequence: GLYMA20G23250.1 (Glycine max), 3'ss of exon 4
lower sequence: Vv13s0019g00810.t01 (Vitis vinifera), 3'ss of exon 4
gtatctaatggactgcatattatctcttttgggagaacttaaaatggattttcttgttaatgtattgtgctttaaattaacttcttctacaag---cttcaagGTTCAAAGTTGGATCAAAAGTGGCTTGAGGGACTTTTCCATTTCCCGAGCATCAGTTGAGTGGGGCATTCCTGTTCCTGATGACAAGACCCAGACTATAT
| | | | ||| | || || ||| | | | | | || || | | | ||||| || | || |||| |||||||||||||||||||| ||||||| ||||| |||||||||||||| || || |||||||||||||||||| ||||||| | ||||| ||||
---cttgaaatttaaaagacattctttaatgtattaatgtaaggttcacactaccgatgctgctttctttcaatatatcgcttctgatatagaacttctctagGTGCAAAGTTGGATCAAAAGTGGTCTGAGGGATTTTTCTATTTCCCGAGCATCTGTGGATTGGGGCATTCCTGTTCCTAATGACAACAAGCAGACCATATMapped 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|120531087|gb|EH259220.1|EH259220EST: CGTTTAAATGAG GTTCAAAGTTGGATCAAAAGTGGCTTGAGGGACTTTTCCATTTCCCGAGCA
genomic: CGTTTAAATGAGgtaaggcaat ... aagcttcaagGTTCAAAGTTGGATCAAAAGTGGCTTGAGGGACTTTTCCATTTCCCGAGCA
atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.ggattttcttgttaatgtattgtgctttaaattaacttcttctacaagcttcaagGTTCAAAGTTGGATCAAAAGTGGCTTGAGGGACTTTTCCATTTCCCGAGCATCAGTTGAGTGGGGCATTCCTGTTCCTGATGACAAGACCCAGACTATAT
aattaac putative branch site (score: 2)
tttaaattaacttctt 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gtatctaatggactgcatattatctcttttgggagaacttaaaatggattttcttgttaatgtattgtgctttaaattaacttcttctacaagcttcaagGTTCAAAGTTGGATCAAAAGTGGCTTGAGGGACTTTTCCATTTCCCGAGCATCAGTTGAGTGGGGCATTCCTGTTCCTGATGACAAGACCCAGACTATAT
- - ctaatgg
- - - - - - -tgcatat
- - - - - - - - - - - - - - ttgggag
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -tgcttta
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - cttcttc