Sequence
atgc intronic sequence ATGC exonic sequencegcatgtataatccatccatcatgtttaatttctaaacttcagagtggtatttatagccacacacaccttagtgtggttttcctatgactttttcctcatgtcatggcttcttctagGGAGCTGGAGGAGCAGTTGAACTGGCACCTGGGTACCTAAAACTGGTCTATGACATTGTACACAAAGCTGGTGGTGTCTGCATTGCTGATGAAGTGCAAT
Basic information
species | Glycine max |
transcript | GLYMA11G36000.2 |
intron # | 4 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GLYMA11G36000.3 (Glycine max), 3'ss of exon 4
lower sequence: GRMZM2G124353_T01 (Zea mays), 3'ss of exon 4
-------gcatgtataatccatccatca--tgtttaattt--ctaaacttcagagtggtatttatagccacacacaccttagtgtggttttcctatgactttttcctcatgtcatggcttcttc----tagGGAGCTGGAGGAGCAGTTGAACTGGCACCTGGGTACCTAAAACTGGTCTATGACATTGTACACAAAGCTGGTGGTGTCTGCATTGCTGATGAAGTGCAAT
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gtataaactttgaacagaccatttataaaatgctagaactaattgaaataatatgtatcttttgtttataaacccaattcaaaataacttatccttgtcgcaatcttgttgatacaccatctctgctgtagGGTGTGGGAGGTGCTGTTGAACTAGCTCCTGGATACCTAAAGTTAGCTTATGACATTGTGCGCAAGGCTGGTGGCGTTTGTATTGCTGATGAAGTCCAGA
upper sequence: GLYMA11G36000.3 (Glycine max), 3'ss of exon 4
lower sequence: AT4G39660.1 (Arabidopsis thaliana), 3'ss of exon 4
gcatgtataatccatccatcatgtttaatttc-taaacttcagagtggtatttatagccacacacaccttagtgtggttttcctatgactttttcctcatgtcatggcttcttctagGGAGCTGGAGGAGCAGTTGAACTGGCACCTGGGTACCTAAAACTGGTCTATGACATTGTACACAAAGCTGGTGGTGTCTGCATTGCTGATGAAGTGCAAT
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----------------gtttttgtttgtttaaacaaaccatcaagtgaaatttagtgatttac-cactctcttg-aacataatcgtcaccatgccattat--catttttacttc-agGGGGTCGGAGGAGCTGTAGAATTGGCTCCTGGTTACTTAAAGTCGGTTTATGAAATTGTTCGCAACGCTGGTGGTGTATGCATTGCTGATGAAGTCCAAA
upper sequence: GLYMA11G36000.3 (Glycine max), 3'ss of exon 4
lower sequence: Vv07s0031g01330.t01 (Vitis vinifera), 3'ss of exon 4
gcatgtataatccatccatcatgtttaatttctaaacttcagagtggtatttatagccacacacaccttagtgtggttttcctatgactttttcctcatgtcatggcttcttctagGGAGCTGGAGGAGCAGTTGAACTGGCACCTGGGTACCTAAAACTGGTCTATGACATTGTACACAAAGCTGGTGGTGTCTGCATTGCTGATGAAGTGCAAT
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----gttcatgttaattactctttttgaggtgtaaat---acattgtttcttactac-atgattggaacattatggattccatttcaaaatt--ctcattt--tggaaaactttagGGAGTGGGAGGAGCAGTGGAATTAGCCCCTGGATACTTGAAACTGGTTTATGACATCGTCCGCAAGGCTGGGGGTGTTTGTATTGCTGACGAAGTGCAAAMapped 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|7640373|gb|AW734676.1|AW734676EST: ACTATGGCACATCANGAANAGTTGCTGGATTTATAGCTGAAACAATTCAG GGAGCTGGAGGAGCAATTGAACT
genomic: ACTATGGCACATCAGGAAAAGTTGCTGGATTTATAGCTGAAACAATTCAGgcatgtataa ... cttcttctagGGAGCTGGAGGAGCAGTTGAACT
EST:
gi|21594810|gb|BQ610275.1|BQ610275EST: ACTATGGCACATCAGGAAAAGTTGCTGGATTTATAGCTGAAACAATTCAG GGAGCTGGAGGAGCAGTTGAACTGGCACCTGGGTACCTAAAACTGGTCTAT
genomic: ACTATGGCACATCAGGAAAAGTTGCTGGATTTATAGCTGAAACAATTCAGgcatgtataa ... cttcttctagGGAGCTGGAGGAGCAGTTGAACTGGCACCTGGGTACCTAAAACTGGTCTAT
atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.cacaccttagtgtggttttcctatgactttttcctcatgtcatggcttcttctagGGAGCTGGAGGAGCAGTTGAACTGGCACCTGGGTACCTAAAACTGGTCTATGACATTGTACACAAAGCTGGTGGTGTCTGCATTGCTGATGAAGTGCAAT
cttcttct CT-rich tract
acttttt 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gcatgtataatccatccatcatgtttaatttctaaacttcagagtggtatttatagccacacacaccttagtgtggttttcctatgactttttcctcatgtcatggcttcttctagGGAGCTGGAGGAGCAGTTGAACTGGCACCTGGGTACCTAAAACTGGTCTATGACATTGTACACAAAGCTGGTGGTGTCTGCATTGCTGATGAAGTGCAAT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGCTG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TGGTGG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GCTGAT