Sequence
atgc intronic sequence ATGC exonic sequence...aactttgtaatcattattattatgaatagatcactctgctgagtggtatacttgagcaaattcagaaaataaattctttgtttctttcttctcacattagGTACATCGCGTGCTTGTGGATCTTGTTTCTGCTTCTGCAAATGCAACGCCTGGTCTTGGAAGGTATCCTCCATTCAAGAGAGAG
Basic information
species | Glycine max |
transcript | GLYMA17G00480.1 |
intron # | 10 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GLYMA17G00480.1 (Glycine max), 3'ss of exon 10
lower sequence: LOC_Os02g50550.1 (Oryza sativa), 3'ss of exon 10
---aactttgtaatcattattattatgaatagatcactctgctgagtg-gtatacttgagcaaattcagaaaataaattctttgtttctttcttctcacattagGTACATCGCGTGCTTGTGGATCTTGTTTCTGCTTCTGCAAATGCAACGCCTGGTCTTGGAAGGTATCCTCCATTCAAGAGAGAG
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gtttattccgggtgaaccgccggtccggtctgct---tctaataactatgcttgccagtgtagtgtcaatatgtaaactaaatacat-tttgtcaatatactagGTACACCGTGTATTATTGGACATAGTAAATGCTTCTGCAAATGCTACACCAGGACTTGGAAGATATCCTCCATTCAAACGCGAG
upper sequence: GLYMA17G00480.1 (Glycine max), 3'ss of exon 10
lower sequence: LOC_Os06g13820.1 (Oryza sativa), 3'ss of exon 10
aactttgtaatcattattattatgaatagatcactctgctgagtggtatacttgagcaaattcagaaaataaattctttgtttctttcttctcacattagGTACATCGCGTGCTTGTGGATCTTGTTTCTGCTTCTGCAAATGCAACGCCTGGTCTTGGAAGGTATCCTCCATTCAAGAGAGAG
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tgttatgtactggtgtatattgttatctttgtattgaaaattgtgaacttcttagtttattgcctaggaaaagtaatagttatctttcttaatgcactagGTACATCGTGTATTGTTAGACATTGTCAATGCTTCAGCAAATGCCACACCAGGACTTGGAAGATATCCTCCATTCAAGCGCGAG
upper sequence: GLYMA17G00480.1 (Glycine max), 3'ss of exon 10
lower sequence: AT1G59610.1 (Arabidopsis thaliana), 3'ss of exon 10
---aactttgtaatcattattattatgaatagatcactctg--ctgagtggtatacttgagcaaattcagaaaataaattctttgtttctttcttctcacattagGTACATCGCGTGCTTGTGGATCTTGTTTCTGCTTCTGCAAATGCAACGCCTGGTCTTGGAAGGTATCCTCCATTCAAGAGAGAG
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tccagattcaaatttattaa-attcctactcaacctttccaacctggttgccttacc--gtctcatctgttactgagctaatatggtctgaacttctta--ttagGTTCACCGAGTGCTTGTTGACATAGTTTCAGCTTCCGCGAATGCCACACCTGGTCTTGGGAGATATCCTCCTTTTAAGAGAGAG
upper sequence: GLYMA17G00480.1 (Glycine max), 3'ss of exon 10
lower sequence: AT1G10290.1 (Arabidopsis thaliana), 3'ss of exon 10
aactttgtaatcattattattatgaatagatcactctg---ctgagtggtata--cttgagcaaattcagaaaataaattctttgtttctttcttctcacattagGTACATCGCGTGCTTGTGGATCTTGTTTCTGCTTCTGCAAATGCAACGCCTGGTCTTGGAAGGTATCCTCCATTCAAGAGAGAG
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----ccgtagatgtagctattttttggttcctactttaaaactcatgcatccagcttctgtcttatttacgtgttgagctaacatggtcttaacttttg-attagGTTCACCGAGTTCTTGTTGACATAGTTTCAGCTTCTGCAAATGCTACACCTGGACTTGGGAGATATCCTCCTTTCAAGCGAGAGMapped 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|208190948|gb|GD988292.1|GD988292EST: AAGGCGTTCTTGAACTGGCGAAGGAGCCATCACGATTGTGTGTTGATGAG GTACATCGCGTGCTTGTGGATCTTGTTTCTGCTTCTGCAAATGCAACGCCT
genomic: AAGGCGTTCTTGAACTGGCGAAGGAGCCATCACGATTGTGTGTTGATGAGgtatgcttct ... ctcacattagGTACATCGCGTGCTTGTGGATCTTGTTTCTGCTTCTGCAAATGCAACGCCT
atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.gtatacttgagcaaattcagaaaataaattctttgtttctttcttctcacattagGTACATCGCGTGCTTGTGGATCTTGTTTCTGCTTCTGCAAATGCAACGCCTGGTCTTGGAAGGTATCCTCCATTCAAGAGAGAG
ttctcac putative branch site (score: 2)
ttctttgtttctttct CT-rich tract
aaattcagaaaataaa 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
aactttgtaatcattattattatgaatagatcactctgctgagtggtatacttgagcaaattcagaaaataaattctttgtttctttcttctcacattagGTACATCGCGTGCTTGTGGATCTTGTTTCTGCTTCTGCAAATGCAACGCCTGGTCTTGGAAGGTATCCTCCATTCAAGAGAGAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TGGAAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGAGA
- - - - - - - - - - - - - - - - -ctctgct
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -aaaataa