Sequence
atgc intronic sequence ATGC exonic sequence...ttttaaaatatcatataataaaaaaaaaaaaaatttagatagtaaatttattgaatttttatcaaatttcttggagctaaataaatgcatttggtggcagGTATCATATATGATATTACAGATGGTGTCACCTGTGACCCACTCTGTTGGAAACTGTGTGAAGCGTGTGGTTGTCATTGTTTCTTCAGTTATATTCTTCC
Basic information
species | Glycine max |
transcript | GLYMA19G00270.1 |
intron # | 7 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GLYMA19G00270.1 (Glycine max), 3'ss of exon 7
lower sequence: LOC_Os01g07730.1 (Oryza sativa), 3'ss of exon 7
--------ttttaaaata-tcatataat----aaaaaaaaaaaaaatttagatagtaaatttattgaatttttatcaaatttcttggagctaaataaatgcatttggt-ggcagGTATCATATATGATATTACAGATGGTGTCACCTGTGACCCACTCTGTTGGAAACTGTGTGAAGCGTGTGGTTGTCATTGTTTCTTCAGTTATATTCTTCC
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gtgaggactgaggaaacagtcacctcttctttggctcaagaaagatttgtgcttgatgattcattgacctgtaaacaaaaggatcatt-ctgtgttctttcttgaaattggcagCTCTCCTACTTGATCCTGGCCAGAGTGTCACCTGTCACCCACTCTGTCGCCAACTGCGTCAAGCGTGTGGTCGTCATCGTGGCGTCTGTTCTCTTCTTCA
upper sequence: GLYMA19G00270.1 (Glycine max), 3'ss of exon 7
lower sequence: AT3G01550.1 (Arabidopsis thaliana), 3'ss of exon 7
------ttttaaaatatcatataataaaaaaaaaaaaaatttagatagtaaatttattgaatttttatcaaatttcttggagctaaataaatgcatt-tggtggcagGTATCATATATGATATTACAGATGGTGTCACCTGTGACCCACTCTGTTGGAAACTGTGTGAAGCGTGTGGTTGTCATTGTTTCTTCAGTTATATTCTTCC
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gttggtccgtctagttcctccgtttcagaaaaactgtactgaattttgtaaagtcggttagtgttaggcttctaatcaacacataaaaattggggttgttgttgtagGTATCGTATATGATATTGGAGATGGTGTCTCCAGTAACACACTCTGTAGGGAACTGCGTGAAGCGTGTGGTGGTTATTACATCATCCATTCTTTTCTTCA
upper sequence: GLYMA19G00270.1 (Glycine max), 3'ss of exon 7
lower sequence: Vv14s0066g01000.t01 (Vitis vinifera), 3'ss of exon 8
ttttaaaatatcatataataaaaaaaaaaaaaatttagatagtaaatttattgaatttttatcaaatttcttggagctaaataaatgcatttgg---tggcagGTATCATATATGATATTACAGATGGTGTCACCTGTGACCCACTCTGTTGGAAACTGTGTGAAGCGTGTGGTTGTCATTGTTTCTTCAGTTATATTCTTCC
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---aacagtagtttcaactttgtaaagcaactgatggtagaattttattatcagttctgtcttcttctacttggtgctaattccatttactcgaatttcgcagGTTTCTTATACGATACTACAGATGGTATCTCCTGTGACACATGCAGTTGGAAATTGTGTGAAGCGAGTAGTGGTGATCATCTCTTCAGTCATCTTCTTCCMapped 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|51338266|gb|CO982132.1|CO982132EST: TATGTGTCAGATCAGTTCTTGCTGCTTTTTGCTTCCATGCATACCAGCAG GTATCATATATGATATTACAGATGGTGTCACCTGTGACCCACTCTGTTGGA
genomic: TATGTGTCAGATCAGTTCTTGCTGCTTTTTGCTTCCATGCATACCAGCAGgtaaggcctt ... ttggtggcagGTATCATATATGATATTACAGATGGTGTCACCTGTGACCCACTCTGTTGGA
atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.atttattgaatttttatcaaatttcttggagctaaataaatgcatttggtggcagGTATCATATATGATATTACAGATGGTGTCACCTGTGACCCACTCTGTTGGAAACTGTGTGAAGCGTGTGGTTGTCATTGTTTCTTCAGTTATATTCTTCC
agctaaa putative branch site (score: 3)
ttgaatttttatcaaa 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
ttttaaaatatcatataataaaaaaaaaaaaaatttagatagtaaatttattgaatttttatcaaatttcttggagctaaataaatgcatttggtggcagGTATCATATATGATATTACAGATGGTGTCACCTGTGACCCACTCTGTTGGAAACTGTGTGAAGCGTGTGGTTGTCATTGTTTCTTCAGTTATATTCTTCC
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TGAAGC
- - - - - - - - - -aaaaaaa
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - aaataaa