Sequence
atgc intronic sequence ATGC exonic sequence...gttgtcttgaattatctccaatcttggaatatcatttaaagtgctcccttaattaatatataaattattattcattttaaattttgatgctgtgtttcagGAATTTTCTCCCGGATCTAATGGTCGAATGACTACAATGGGTGTATATGTCCGTGATTTGCTTCTTGGACAG
Basic information
species | Glycine max |
transcript | GLYMA14G39220.1 |
intron # | 3 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GLYMA14G39220.1 (Glycine max), 3'ss of exon 3
lower sequence: LOC_Os05g08600.1 (Oryza sativa), 3'ss of exon 3
---------gttgtc-ttgaattatctccaatcttggaatatcatttaaagtgctcccttaattaatatataaattattattcattttaaattttgatgctgtgtttcagGAATTTTCTCCCGGATCTAATGGTCGAATGACTACAATGGGTGTATATGTCCGTGATTTGCTTCTTGGACAG
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caataagaagtaatcattgtgccaccttttactctg---tctagtccatatgattacatcag---atatatgagttgctttta--tttaaattt--atgttctcatgcagGAATTCTCCCCTGGATCTAATGGTCGCATGACAACCATGGGTGTTTATGTGCGTGATCTTATACTTGGACAG
upper sequence: GLYMA14G39220.1 (Glycine max), 3'ss of exon 3
lower sequence: AT5G37370.1 (Arabidopsis thaliana), 3'ss of exon 3
------gttgtcttgaatt-atctccaatcttggaatatcatttaaagtgctcccttaattaatatataaattattattcattttaaattttgatgctgtgtttcagGAATTTTCTCCCGGATCTAATGGTCGAATGACTACAATGGGTGTATATGTCCGTGATTTGCTTCTTGGACAG
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cacctagttatcagaaattcataacatgcactccaacttctttgaacatgg-ctctgcactggtatacagtttaacgtgaattatgtttttttgt------cttcagGAGTTTTCACCAGGATCAAATGGACGGATGACGACAATGGGTGTTTATGTACGTGATTTGCTGCTTGGACTG
upper sequence: GLYMA14G39220.1 (Glycine max), 3'ss of exon 3
lower sequence: Vv04s0043g00270.t01 (Vitis vinifera), 3'ss of exon 3
gttgtcttgaattatct----ccaatcttggaatatcatttaaagtgctcccttaattaatatataaattattattcattttaaattttgatgctgtgtttcagGAATTTTCTCCCGGATCTAATGGTCGAATGACTACAATGGGTGTATATGTCCGTGATTTGCTTCTTGGACAG
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---gaaatgggatttctaaaataaatccatgacaataattaagaggtttttctttctacatattcacagaatcaca-gtattatctctatgatttgtgtttcagGAATTCTCTCCTGGATCTACTGGTAGAATGACCACAATGGGTGCATATGTTCGTGATTTACTCCTGGGACAGMapped 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|18730262|gb|BM525777.1|BM525777EST: ATCCGAAGACACTATGGAATTGGTTTGAGTCATATGTAAAAGATGATGAG GAATTTTCTCCCGGATCTAATGGTCGAATGACTACAATGGGTGTATATGTC
genomic: ATCCGAAGACACTATGGAATTGGTTTGAGTCATATGTAAAAGATGATGAGgtatgatgac ... tgtgtttcagGAATTTTCTCCCGGATCTAATGGTCGAATGACTACAATGGGTGTATATGTC
EST:
gi|6455394|gb|AW186077.1|AW186077EST: ATCCGAAGACACTATGGAATTGGTTTGAGTCATATGTAAAAGATGATGAG GAATTTTCTCCCGGATCTAATGGTCGAATGACTACAATGGGTGTATATGTC
genomic: ATCCGAAGACACTATGGAATTGGTTTGAGTCATATGTAAAAGATGATGAGgtatgatgac ... tgtgtttcagGAATTTTCTCCCGGATCTAATGGTCGAATGACTACAATGGGTGTATATGTC
atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.cccttaattaatatataaattattattcattttaaattttgatgctgtgtttcagGAATTTTCTCCCGGATCTAATGGTCGAATGACTACAATGGGTGTATATGTCCGTGATTTGCTTCTTGGACAG
aattaatatataaatt 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gttgtcttgaattatctccaatcttggaatatcatttaaagtgctcccttaattaatatataaattattattcattttaaattttgatgctgtgtttcagGAATTTTCTCCCGGATCTAATGGTCGAATGACTACAATGGGTGTATATGTCCGTGATTTGCTTCTTGGACAG
- tgtcttg
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -ttgatgc