Sequence
atgc intronic sequence ATGC exonic sequence...ttggcggtgtgcatctaaacatgcccttattattgttgtacatttgatgtgcctgtagatgaaatacattataaatgttagactccttaatttcttgcagGATGCAAAGATTTGTTTTTCTGATGATACACTACCTGATGGATATAGTGTAAATAAAGGAGATATGGTATCTTACCAACCTTATGCAATGGGTCGGATGA
Basic information
species | Glycine max |
transcript | GLYMA07G09160.1 |
intron # | 4 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GLYMA07G09160.1 (Glycine max), 3'ss of exon 4
lower sequence: Vv15s0048g01690.t01 (Vitis vinifera), 3'ss of exon 4
ttggcggtgtgcatctaaacatgcccttattattgttgtacatttgatgtgcctgtagatgaaatacattataaatgttagactccttaatttc----ttgcagGATGCAAAGATTTGTTTTTCTGATGATACACTACCTGATGGATATAGTGTAAATAAAGGAGATATGGTATCTTACCAACCTTATGCAATGGGTCGGATGA
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----tctccttttttgacatcttccttgcacattttcatcttctgcattatattttgtgccaaacagttctgaaatctcaaattttctaactctgggtttgcagGATGCAAAGATTTGCTTTTCAGATGACACGCTGCCAGATGGGTTCAGTGTGAGGAAAGGAGATATGGTGTCTTACCAACCATATGCAATGGGCAGGATGA
upper sequence: GLYMA07G09160.1 (Glycine max), 3'ss of exon 4
lower sequence: Vv15s0048g01670.t01 (Vitis vinifera), 3'ss of exon 4
ttggcggtgtgcatctaaacatgcccttattattgttgtacatttgatgtgcctgtagatg--aaatacattataaatgttagactccttaatttc----ttgcagGATGCAAAGATTTGTTTTTCTGATGATACACTACCTGATGGATATAGTGTAAATAAAGGAGATATGGTATCTTACCAACCTTATGCAATGGGTCGGATGA
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------tctccttttttgacatcttcctagcaaattttcatcttctgcattatattttgtgccaaacagttctgaaatctcaaattttctgactctgggtttgcagGATGCAAAGATTTGCTTTTCAGATGACACGCTGCCAGATGGGTTCAGTGTGAGGAAAGGAGATATAGTGTCTTACCAACCATATGCAATGGGCAGGATGA
upper sequence: GLYMA07G09160.1 (Glycine max), 3'ss of exon 4
lower sequence: Vv15s0048g01680.t01 (Vitis vinifera), 3'ss of exon 4
ttggcggtgtgcatctaaacatgcccttattattgttgtacatttgatgtgcctgtagatg--aaatacattataaatgttagactccttaatttc----ttgcagGATGCAAAGATTTGTTTTTCTGATGATACACTACCTGATGGATATAGTGTAAATAAAGGAGATATGGTATCTTACCAACCTTATGCAATGGGTCGGATGA
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------tctccttttttgacatcttcctagcaaattttcatcttctgcattatattttgtgccaaacagttctgaaatctcaaagtttctaactctgggtttgcagGATGCAAAGATTTGCTTTTCAGATGACACGCTGCCAGATGGGTTCAGTGTGAGGAAAGGAGATATGGTGTCTTACCAACCATATGCAATGGGCAGGATGAMapped 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|213602867|gb|DB978170.1|DB978170EST: CCATGCAGCAATTACTGAAACGGACAGACTTGTA-CCTGCAGTTCCCGTT GATGCAAAGATTTGTTTTTCTGATGATACACTACCTGATGGATATAGTGTA
genomic: CCATGCAGCAATTACTGAAACTCTCAGACTT-TATCCTGCAGTTCCCGTGgtaaggttat ... tttcttgcagGATGCAAAGATTTGTTTTTCTGATGATACACTACCTGATGGATATAGTGTA
atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.gatgtgcctgtagatgaaatacattataaatgttagactccttaatttcttgcagGATGCAAAGATTTGTTTTTCTGATGATACACTACCTGATGGATATAGTGTAAATAAAGGAGATATGGTATCTTACCAACCTTATGCAATGGGTCGGATGA
ccttaat putative branch site (score: 4)
ctccttaatttctt CT-rich tract
atgaaatacattataa 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
ttggcggtgtgcatctaaacatgcccttattattgttgtacatttgatgtgcctgtagatgaaatacattataaatgttagactccttaatttcttgcagGATGCAAAGATTTGTTTTTCTGATGATACACTACCTGATGGATATAGTGTAAATAAAGGAGATATGGTATCTTACCAACCTTATGCAATGGGTCGGATGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGGAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGGAGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GGAGAT
- ggcggtg
- - - - -tgcatct
- - - - - - - - - -catgccc
- - - - - - - - - - - - - - - - -tgttgta
- - - - - - - - - - - - - - - - - - - - - - - - gtgcctg
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - gaaatac