Sequence
atgc intronic sequence ATGC exonic sequence...aatttttgcctattgtgtttggtgcaactgttctagtgggaagcactgcctttgtttttttaatccaaaaaagttcatgaggactgtttctatttgctagGTAACCCCCAATCTTTATGGAAATCTTGTTGCAAATACAGCGGCAGGTATTGCTGGAGGCACTGGAGTCATGCCGGGAG
Basic information
species | Glycine max |
transcript | GLYMA11G08920.1 |
intron # | 2 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GLYMA11G08920.1 (Glycine max), 3'ss of exon 2
lower sequence: LOC_Os02g38200.1 (Oryza sativa), 3'ss of exon 2
-----aatttttgcct-attgtgtttggtgcaactgttctagtgggaagcactgcctttgtttttttaatccaaaaaagttcatgaggactgtttctatttgctagGTAACCCCCAATCTTTATGGAAATCTTGTTGCAAATACAGCGGCAGGTATTGCTGGAGGCACTGGAGTCATGCCGGGAG
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tgaaggatgttttcttgattgtcacagagttttcagatcaagtttgtttgattaactaggaacttttgatttagcat-gctcttg----ttttgtgtgtttg-tagGTCACGCCAAATCTTTATGGCAATCTGGTGGCTAACACGGCTGCAGGTATTGCTGGAGGCACTGGTGTCATGCCTGGAG
upper sequence: GLYMA11G08920.1 (Glycine max), 3'ss of exon 2
lower sequence: GRMZM2G006672_T02 (Zea mays), 3'ss of exon 2
-----aatttttgcctattgtgtttggtgcaactgttctagtgggaagcactgcctttgtttttttaatccaaaaaagttcatgaggactgtttctatttgctagGTAACCCCCAATCTTTATGGAAATCTTGTTGCAAATACAGCGGCAGGTATTGCTGGAGGCACTGGAGTCATGCCGGGAG
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ttctaaagggctttttttccagaataatatgaagatttcaa-atgatttaattagattacctgtggagtttgaacatacttttct---ttggttccttttg-tagGTCACCCCAAATCTTTATGGCAATCTGGTGGCTAATGTAGCTGCAGGTATTGCTGGAGGCACTGGTGTCATGCCTGGAG
upper sequence: GLYMA11G08920.1 (Glycine max), 3'ss of exon 2
lower sequence: Vv04s0210g00180.t01 (Vitis vinifera), 3'ss of exon 2
aatttttgcctattgtgtttggtgcaactgttctagtgggaagcactgcctttgtttttttaatccaaaaaagttcatgaggactgtt-tctatttgctagGTAACCCCCAATCTTTATGGAAATCTTGTTGCAAATACAGCGGCAGGTATTGCTGGAGGCACTGGAGTCATGCCGGGAG
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-acctatgcctactagcttcattatttgttgtcttccatttttttccagagagaaaagaaagggcttatatagcttatgctttgtggtgtacattttacagGTGACACCTAATCTTTATGGCAATTTAGTGGCAAATACAGCAGCTGGTATTGCTGGTGGCACAGGAGTCATGCCAGGAGMapped 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|11413754|gb|BF425765.1|BF425765EST: ACAACTGCTGCATGCAGCTTGTTTCAAAACCGGAGCAGTTTGATGTCATG GTAACCCCCCATCTTTATGGAAATCTTGTTGCAAATACAGCGGCAGGTATT
genomic: ACAACTGCTGCATGCAGCTTGTTTCAAAACCGGAGCAGTTTGATGTCATGgtatgtaaat ... tatttgctagGTAACCCCCAATCTTTATGGAAATCTTGTTGCAAATACAGCGGCAGGTATT
atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.ctgcctttgtttttttaatccaaaaaagttcatgaggactgtttctatttgctagGTAACCCCCAATCTTTATGGAAATCTTGTTGCAAATACAGCGGCAGGTATTGCTGGAGGCACTGGAGTCATGCCGGGAG
ttttaat putative branch site (score: 3)
tttctattt putative PPT
tttgtttttttaatcc 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
aatttttgcctattgtgtttggtgcaactgttctagtgggaagcactgcctttgtttttttaatccaaaaaagttcatgaggactgtttctatttgctagGTAACCCCCAATCTTTATGGAAATCTTGTTGCAAATACAGCGGCAGGTATTGCTGGAGGCACTGGAGTCATGCCGGGAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GCTGGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TGGAGG
- -ttttgcc
- - - - - - - - - -tggtgca
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - aaaaaag
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - tcatgag
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -ctgtttc