Sequence
atgc intronic sequence ATGC exonic sequencegtatggattttaattctttccttttgaggatagctttttgcttaaatgatgaattgcagatacaaaagggatgtatctgatattctgaatttggatgtaccagGGTAGAAATGCAGATGCATTGGCTTTGTACTTTGGTGAAGATCCAGCACGTGTCCCATTTGAACAAG
Basic information
species | Glycine max |
transcript | GLYMA17G33930.1 |
intron # | 15 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GLYMA17G33930.1 (Glycine max), 3'ss of exon 15
lower sequence: AT2G25050.2 (Arabidopsis thaliana), 3'ss of exon 15
gtatgga--ttttaattctttccttttgaggatagcttt--ttgcttaaatgatgaattgcagatacaaaagggatgtatctgatatt---ctgaatttggatgtacca------gGGTAGAAATGCAGATGCATTGGCTTTGTACTTTGGTGAAGATCCAGCACGTGTCCCATTTGAACAAG
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gtaaggaatctttaattctccaccttctccc-tggctttactttctaaagcactgtactgt-ggtaaggattcttttccgctatcattgacctgtgttttgtcatggcattcttagGGTGGAAGCGCCGATGCTTTGGCGTTATACTTCGGAGAAGATCCAGCTCGTGTCCCATTTGAGCAAG
upper sequence: GLYMA17G33930.1 (Glycine max), 3'ss of exon 15
lower sequence: AT3G32400.1 (Arabidopsis thaliana), 3'ss of exon 15
gtatggatt--ttaattcttt-ccttttgaggatagctttttgcttaaatgatgaattgcagatacaaaagggatgtat-ctgatatt------ctgaatttggatgtacca------gGGTAGAAATGCAGATGCATTGGCTTTGTACTTTGGTGAAGATCCAGCACGTGTCCCATTTGAACAAG
||| ||| | |||||||| |||| | | | || || || | | | | |||| || | | | | ||| ||| ||| | | || |||| ||| || ||||| ||||| || ||||| || ||||||||||| |||||||||||||| ||||
gtaaggactctttaattctccaccttctccctgtctttactttctaaagcactttactttactgtggtaaggaatcttttccgctatcattgacctgtgttttgtcatggcattcttagGGTGGAAGCGCCGATGCTTTGGCGTTATACTTCGGAGAAGATCCAGCTCGTGTCCCATTTGAGCAAG
upper sequence: GLYMA17G33930.1 (Glycine max), 3'ss of exon 15
lower sequence: Vv04s0008g06530.t01 (Vitis vinifera), 3'ss of exon 18
gtatggattttaattcttt---ccttttgaggatagctttttgcttaaatgatgaattgcagatacaaaagg--gatgtatctgatatt-ctgaatttggatgtac-cagGGTAGAAATGCAGATGCATTGGCTTTGTACTTTGGTGAAGATCCAGCACGTGTCCCATTTGAACAAG
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gtaagtactttgttttattgagttactttcagacatctgtcatctgcgac-atgctttcatgatgaggatgcttattgccttaaatatttctgaatttggatttgttcagGGTAGAAATGCAGATGCATTGGCTCTTTATTTTGGAGAAGATCCAGCTCGTTGCCCATTTGAGCAAGMapped 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|18039236|gb|BM307530.1|BM307530EST: CTTATGCTGAGGCTGAAGTGAGGTCTTTGGCTCAACTATATGCCAATGTG GGTAGAAATGCAGATGCATTGGCTTTGTACTTTGGTGAAGATCCAGCACGT
genomic: CTTATGCTGAGGCTGAAGTGAGGTCTTTGGCTCAACTATATGCCAATGTGgtatggattt ... gatgtaccagGGTAGAAATGCAGATGCATTGGCTTTGTACTTTGGTGAAGATCCAGCACGT
EST:
gi|23734926|gb|BU765717.1|BU765717EST: CTTATGCTGAGGCTGAAGTGAGGTCTTTGGCTCAACTATATGCCAATGTG GGTAGAAATGCAGATGCATTGGCTTTGTACTTTGGTGAAGATCCAGCACGT
genomic: CTTATGCTGAGGCTGAAGTGAGGTCTTTGGCTCAACTATATGCCAATGTGgtatggattt ... gatgtaccagGGTAGAAATGCAGATGCATTGGCTTTGTACTTTGGTGAAGATCCAGCACGT
atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.atgaattgcagatacaaaagggatgtatctgatattctgaatttggatgtaccagGGTAGAAATGCAGATGCATTGGCTTTGTACTTTGGTGAAGATCCAGCACGTGTCCCATTTGAACAAG
atctgat putative branch site (score: 4)
atacaaaa 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gtatggattttaattctttccttttgaggatagctttttgcttaaatgatgaattgcagatacaaaagggatgtatctgatattctgaatttggatgtaccagGGTAGAAATGCAGATGCATTGGCTTTGTACTTTGGTGAAGATCCAGCACGTGTCCCATTTGAACAAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TGAAGA