Sequence
atgc intronic sequence ATGC exonic sequencegtatgagaagattgagggagcaattctttatgtattctttgacttgatcgatatcttcaaaggggttcttacatgtaaatgtctttcttttaaccagTGAATCTTAGGATCAAGTCATTTAGAGTGCCAGAGCTTTTTATAGAGGTTCCAGAAACTGCAACAATTGGGTCCTTGAAG
Basic information
species | Glycine max |
transcript | GLYMA11G14760.1 |
intron # | 5 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GLYMA11G14760.4 (Glycine max), 3'ss of exon 4
lower sequence: AT5G59430.2 (Arabidopsis thaliana), 3'ss of exon 5
gtatgagaagattgagggagcaattctttatgtattctttgact-tgatcgatatcttcaaagg----ggttcttacatgtaaatgtctttcttttaaccagTGAATCTTAGGATCAAGTCATTTAGAGTGCCAGAGCTTTTTATAGAGGTTCCAGAAACTGCAACAATTGGGTCCTTGAAG
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-----------gtaacaatggagtctcatctgaattctttgtcggtgttatttacttacaaaagcggagaagctaacatgagaatgtttattt------cagTGAAACTACGGATCAAGTCGTTCAGGGTGCCTGAGCTTTTCATAGAGATTCCAGAAACTGCTACTGTTGGCTCATTGAAG
upper sequence: GLYMA11G14760.4 (Glycine max), 3'ss of exon 4
lower sequence: AT3G46590.1 (Arabidopsis thaliana), 3'ss of exon 5
gtatgagaagattgagggag---caattctttatgtattctttgacttgatcgatatcttcaaaggggttcttacatgtaaatgtctttcttttaaccagTGAATCTTAGGATCAAGTCATTTAGAGTGCCAGAGCTTTTTATAGAGGTTCCAGAAACTGCAACAATTGGGTCCTTGAAG
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------gtaatttaatggagtctcaagtctcaatctatcctttg--ttcgcttattgtttcgttgaaatatttttgttt---tgttttgttactctttagTGAAGCTGCGGATCAAGTCTTTTAGGGTGCCTGAGCTTTTCGTAGAGATTCCAGAAACTGCTACTGTTGGCTCCTTGAAG
upper sequence: GLYMA11G14760.4 (Glycine max), 3'ss of exon 4
lower sequence: Vv06s0004g04940.t01 (Vitis vinifera), 3'ss of exon 5
gtatgagaagatt-gagggagcaattctttatgtattcttt-gacttgatcgatatcttcaaa--ggggttcttacatgtaaatgtctttcttttaac-cagTGAATCTTAGGATCAAGTCATTTAGAGTGCCAGAGCTTTTTATAGAGGTTCCAGAAACTGCAACAATTGGGTCCTTGAAG
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gtatgagagcctttgatggagtgattctt-atgtactcttttgacttgattggtgtctgatattcgaagttcttatgtgaagatgtatttccttttactcagTGAAGCTTAGGATCAAGTCTTTCAGGGTGCCAGAGCTCTTTATAGAGATTCCAGAAACTGCAACTGTTGGTTCCCTCAAGMapped 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|207800143|gb|GD771116.1|GD771116EST: ATCTTTGGAAGCATGCCAACATCAGACGTTACGAAGCATAGGTTCTCATG TGAATCTTAGGATCAAGTCATTTAGAGTGCCAGAGCTTTTTATAGAGGTTC
genomic: ATCTTTGGAAGCATGCCAACATCAGACGTTACGAAGCATAGGTTCTCATGgtatgagaag ... ttttaaccagTGAATCTTAGGATCAAGTCATTTAGAGTGCCAGAGCTTTTTATAGAGGTTC
EST:
gi|9902267|gb|BE611235.1|BE611235EST: ATCTTTGGAAGCATGCCAACATCAGACGTTACGAAGCATAGGTTCTCATG TGAATCTTAGGATCAAGTCATTTAGAGTGCCAGAGCTTTTTATAGAGGTTC
genomic: ATCTTTGGAAGCATGCCAACATCAGACGTTACGAAGCATAGGTTCTCATGgtatgagaag ... ttttaaccagTGAATCTTAGGATCAAGTCATTTAGAGTGCCAGAGCTTTTTATAGAGGTTC
atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.cttgatcgatatcttcaaaggggttcttacatgtaaatgtctttcttttaaccagTGAATCTTAGGATCAAGTCATTTAGAGTGCCAGAGCTTTTTATAGAGGTTCCAGAAACTGCAACAATTGGGTCCTTGAAG
ttcttac putative branch site (score: 2)
tctttcttttaacc putative PPT
tttcttttaa 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gtatgagaagattgagggagcaattctttatgtattctttgacttgatcgatatcttcaaaggggttcttacatgtaaatgtctttcttttaaccagTGAATCTTAGGATCAAGTCATTTAGAGTGCCAGAGCTTTTTATAGAGGTTCCAGAAACTGCAACAATTGGGTCCTTGAAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGAGCT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GAGCTT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TTGAAG