Sequence
atgc intronic sequence ATGC exonic sequence...aaggtcatgtattatataattttataatatagtcctactttgtagtagcattattttgtttcttgatttctaatttacatgattttgtttgggattgaagGTGGAGCAAAGGTACAGGCAGTACCACAGCCAGATGCAGATTGTGATATCCTCTTTCGAGCAAGCTGCTGGGATAGGCTCAGCGAGGACGTACACTGCTC
Basic information
species | Glycine max |
transcript | GLYMA02G35450.1 |
intron # | 3 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GLYMA02G35450.1 (Glycine max), 3'ss of exon 3
lower sequence: LOC_Os12g06340.2 (Oryza sativa), 3'ss of exon 2
aaggtcatgtattatataattttataatatagtc--ctactttgtagtagcattatt-ttgtttcttgatttctaatttacatgattttgtttgggat-tgaagGTGGAGCAAAGGTACAGGCAGTACCACAGCCAGATGCAGATTGTGATATCCTCTTTCGAGCAAGCTGCTGGGATAGGCTCAGCGAGGACGTACACTGCTC
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----acttgtaataaatcctcctcatctgaagttggcaaataactaattaaatgactgttgtatttaattaactaaagtaattagtggtaattaacttgtgcagGTGGAGCAGCGGTACAGGCAGTACCACCGGCAGATGCAGGGGGTGGCGGCGGCGTTCGAGGCGGCGGCGGGGGCCGGGTCGGCGACGACGTACACGTCGC
upper sequence: GLYMA02G35450.1 (Glycine max), 3'ss of exon 3
lower sequence: AT2G35940.2 (Arabidopsis thaliana), 3'ss of exon 2
---aaggtcatgtattatataattttataatatagtcctactttgtagtagcattattttgtttcttgatttctaatttacatgattttgtttgggattgaa--gGTGGAGCAAAGGTACAGGCAGTACCACAGCCAGATGCAGATTGTGATATCCTCTTTCGAGCAAGCTGCTGGGATAGGCTCAGCGAGGACGTACACTGCTC
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ctcttagtaaag-actaacaacttttatagattatattta---tgtagaccgtacacttatgttcataagactcacgttactttgttg-gttgaaaaatgaaaagGTGGAGCAGAGATATAGACAGTACCACCAGCAGATGCAGATGGTGATCTCTTCGTTCGAGCAAGCGGCAGGGATAGGATCAGCGAAGTCATACACGTCGC
upper sequence: GLYMA02G35450.1 (Glycine max), 3'ss of exon 3
lower sequence: Vv08s0105g00230.t01 (Vitis vinifera), 3'ss of exon 9
aaggtcatgtattatataattttata-atatagtcctactttgtagtagcattattttgtttcttgatttctaatttacatgattttgtttgggattgaagGTGGAGCAAAGGTACAGGCAGTACCACAGCCAGATGCAGATTGTGATATCCTCTTTCGAGCAAGCTGCTGGGATAGGCTCAGCGAGGACGTACACTGCTC
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aaaattgaaatttctgaggacaggtacagagtgctttgtaatatcatggcagcatgtgaaactgtaaattgacttgctcattattt-gtggtggtttgaagGTGGAGCAAAGATACCGGCAGTATCATCATCAGATGCAGATTGTGATTTCTTCATTCGAGCAAGCGGCAGGGATCGGGTCCGCCAAAACTTACACAGCCCMapped 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|13481450|gb|BG510793.1|BG510793EST: GACAAGAAATTCAGATGAAGAAAGCCAAGCTAATCAACATGCTTGATGAG GTGGAGCAAAGGTACAGGCAGTACCACAGCCAGATGCAGATTGTGATATCC
genomic: GACAAGAAATTCAGATGAAGAAAGCCAAGCTAATCAACATGCTTGATGAGgtaatctttt ... gggattgaagGTGGAGCAAAGGTACAGGCAGTACCACAGCCAGATGCAGATTGTGATATCC
atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.tagcattattttgtttcttgatttctaatttacatgattttgtttgggattgaagGTGGAGCAAAGGTACAGGCAGTACCACAGCCAGATGCAGATTGTGATATCCTCTTTCGAGCAAGCTGCTGGGATAGGCTCAGCGAGGACGTACACTGCTC
ttctaat putative branch site (score: 2)
ttattttgtttcttga 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
aaggtcatgtattatataattttataatatagtcctactttgtagtagcattattttgtttcttgatttctaatttacatgattttgtttgggattgaagGTGGAGCAAAGGTACAGGCAGTACCACAGCCAGATGCAGATTGTGATATCCTCTTTCGAGCAAGCTGCTGGGATAGGCTCAGCGAGGACGTACACTGCTC
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGCAAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - CAAGCT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGCTG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGCTGC
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GCTGCT