Sequence
atgc intronic sequence ATGC exonic sequence...ataccattttagattagtaataaatttgatgcgtatgtttgagctatatatatcaacaaggttatccattagtaaatttacttaattattgacaatgtagGAGCCAGTTCTTCCTGGTTGTTTCCTGCGAGCCAGGGCCATTGGATTGATGCCTATGATTGACCAG
Basic information
species | Glycine max |
transcript | GLYMA07G05390.2 |
intron # | 5 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GLYMA07G05390.1 (Glycine max), 3'ss of exon 5
lower sequence: LOC_Os05g36260.1 (Oryza sativa), 3'ss of exon 3
-ataccattttagattagtaataaatttgatgcgtatgtttgagctatatatatcaacaaggttatccattagtaaatttacttaattattgacaatgtagGAGCCAGTTCTTCCTGGTTGTTTCCTGCGAGCCAGGGCCATTGGATTGATGCCTATGATTGACCAG
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gtgaacagaattgac--gcccttaattttctatatg-actcacattttctgcatttgctaatttgtctaacgtacaaccttgt--gttgttcgcaac-cagGAACCAGTTCTTCCTGGTTCATTCCTCCGAGCCAGGGCCATTGGTCTCATGCCTATGATTGACCAG
upper sequence: GLYMA07G05390.1 (Glycine max), 3'ss of exon 5
lower sequence: AT1G01050.1 (Arabidopsis thaliana), 3'ss of exon 5
ataccattttagattagtaataaatttgatgcgtatgtttgagctatatatatcaacaaggttatccattagtaaatttacttaattattgacaatgtagGAGCCAGTTCTTCCTGGTTGTTTCCTGCGAGCCAGGGCCATTGGATTGATGCCTATGATTGACCAG
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-----gtattactctttctttctttctcatat-tatccctatactatttgcaccaatt---ttttgtattt-caaatatatattattatctttg-tgtagGAACCTGTGCTTCCGGGTTGTTTTCTGCGTGCCAGAGCCATTGGATTAATGCCTATGATTGACCAG
upper sequence: GLYMA07G05390.1 (Glycine max), 3'ss of exon 5
lower sequence: AT2G46860.1 (Arabidopsis thaliana), 3'ss of exon 4
ataccattttagattagtaataaatttgatgcgtatgtttgagctatatatatcaacaaggttatccattagtaaatttacttaattattgaca-atgtagGAGCCAGTTCTTCCTGGTTGTTTCCTGCGAGCCAGGGCCATTGGATTGATGCCTATGATTGACCAG
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----------------gtaactgtgttttcacaaccatcaaaattat---catcaaataccacattgtgttgtaacctgagttagcttctgattcgtgtagGAACCAGTGCTTCCCGGATGTTTCCTCCGTGCTAGAGCCATTGGATTAATGCCCATGATTGATCAG
upper sequence: GLYMA07G05390.1 (Glycine max), 3'ss of exon 5
lower sequence: Vv02s0025g02980.t01 (Vitis vinifera), 3'ss of exon 4
--------------ataccattttagattagtaataa-atttgatgcgtatgtttgagctatata--tatcaacaaggttatccattagtaaatttacttaatta--ttgacaatgt-----agGAGCCAGTTCTTCCTGGTTGTTTCCTGCGAGCCAGGGCCATTGGATTGATGCCTATGATTGACCAG
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gtagttcaaactagatagcattt--aatcaataataagagctcgtctttgttttgcaactaaacagttgtgggcgag-tagattggaagtgtttttacaagctcaaactgacatttttgaacagGAACCAGTTGTTCCTGGCTGTTTTCTTCGAGCCAGGGCCATTGGGCTGATGCCCATGATTGATCAGMapped 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|17400209|gb|BM176991.1|BM176991EST: GAACTCTGTGTGAAGACAATGATCCAATTGATGTCTTGGTTCTCATGCAG GAGCCAGTTCTTCCTGGTTGTTTCCTGCGAGCCAGGGCCATTGGATTGATG
genomic: GAACTCTGTGTGAAGACAATGATCCAATTGATGTCTTGGTTCTCATGCAGgtaaattttt ... gacaatgtagGAGCCAGTTCTTCCTGGTTGTTTCCTGCGAGCCAGGGCCATTGGATTGATG
atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.atatatatcaacaaggttatccattagtaaatttacttaattattgacaatgtagGAGCCAGTTCTTCCTGGTTGTTTCCTGCGAGCCAGGGCCATTGGATTGATGCCTATGATTGACCAG
tattgac putative branch site (score: 2)
ttatccattagtaaat 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
ataccattttagattagtaataaatttgatgcgtatgtttgagctatatatatcaacaaggttatccattagtaaatttacttaattattgacaatgtagGAGCCAGTTCTTCCTGGTTGTTTCCTGCGAGCCAGGGCCATTGGATTGATGCCTATGATTGACCAG
- - - - - - - - - - - - -ttgatgc
- - - - - - - - - - - - - - - - - atgtttg
- - - - - - - - - - - - - - - - - - - - - - - - - -atcaaca