Sequence
atgc intronic sequence ATGC exonic sequence...aatggagtcttgtgtttaagagatgttatgtggtttactgaaggatgagtgaacaacatacgtgtgtgttaacgaatgaatatttgaaattggggtttagGTTTTCTCATTTAAGCTTCGTGGAGCTTATAATATGATGGCAAAGCTTCCGAGGGAATTGTTGGAAAGGGGGGTTATATGCTCGTCTGCTGGCAATCATG
Basic information
species | Glycine max |
transcript | GLYMA10G07340.1 |
intron # | 1 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GLYMA10G07340.1 (Glycine max), 3'ss of exon 1
lower sequence: AT3G10050.1 (Arabidopsis thaliana), 3'ss of exon 1
------aatggagtcttgtgtttaagagatgttatgtggtttact----gaaggatgagtgaa-------caacatacg------tgtgtgttaacgaa-tgaatatt---tgaaattggggtttagGTTTTCTCATTTAAGCTTCGTGGAGCTTATAATATGATGGCAAAGCTTCCGAGGGAATTGTTGGAAAGGGGGGTTATATGCTCGTCTGCTGGCAATCATG
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gtaagtaatgaagcttctccctttatacattttggttgattttttaggtgaattatgtatggaattgagactacatctgaggttttatgtgttgttgtactgagtggtgactggaattgt--tttagGTATTCTCGTTTAAGCTTCGTGGAGCTTACAATATGATGGTGAAACTTCCAGCAGATCAATTGGCAAAAGGAGTTATCTGCTCTTCAGCTGGAAACCATG
upper sequence: GLYMA10G07340.1 (Glycine max), 3'ss of exon 1
lower sequence: Vv08s0007g04310.t01 (Vitis vinifera), 3'ss of exon 1
aatggagtcttgtgtttaagagatgttatgtggtttactgaaggatgagtgaacaacatacgtgtgtgttaacg-aatgaatatt-tgaaattggggtttagGTTTTCTCATTTAAGCTTCGTGGAGCTTATAATATGATGGCAAAGCTTCCGAGGGAATTGTTGGAAAGGGGGGTTATATGCTCGTCTGCTGGCAATCATG
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gacacacgtttcttttttggttggtttagaagagtt--tgaattggaaattggtgtcttaggtcaacttagtcttgatcattatgatggatttggtttgtagGTATTTTCCTTCAAGCTCCGTGGTGCTTATAATATGATGGCAAAAATTCCAAAAGAACAGTTGGAAAGAGGGGTTATCTGCTCTTCAGCAGGAAATCATGMapped 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|308097901|gb|HO761072.1|HO761072EST: CTGCGAGACTCGGGGCTAAGGTTTGGCTCAAGAGAGAGGATTTGCAACCT GTTTTCTCATTTAAGCTTCGTGGAGCTTATAATATGATGGCAAAGCTTCCG
genomic: CTGCGAGACTCGGGGTTAAGGTTTGGCTCAAGAGAGAGGATTTGCAACCTgtaagttcgt ... tggggtttagGTTTTCTCATTTAAGCTTCGTGGAGCTTATAATATGATGGCAAAGCTTCCG
atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.tgagtgaacaacatacgtgtgtgttaacgaatgaatatttgaaattggggtttagGTTTTCTCATTTAAGCTTCGTGGAGCTTATAATATGATGGCAAAGCTTCCGAGGGAATTGTTGGAAAGGGGGGTTATATGCTCGTCTGCTGGCAATCATG
tgttaac putative branch site (score: 2)
aatgaatatttgaaat 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
aatggagtcttgtgtttaagagatgttatgtggtttactgaaggatgagtgaacaacatacgtgtgtgttaacgaatgaatatttgaaattggggtttagGTTTTCTCATTTAAGCTTCGTGGAGCTTATAATATGATGGCAAAGCTTCCGAGGGAATTGTTGGAAAGGGGGGTTATATGCTCGTCTGCTGGCAATCATG
- - - -tcttgtg
- - - - - - - - - - - -tgttatg
- - - - - - - - - - - - - - - - - - - - - - -tgagtga
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -gtgtgtg