Sequence
atgc intronic sequence ATGC exonic sequencegtataatccatccatcatgtttaatttctaaacttcagagtggtatttatagccacacacaccttagtgtggttttcctatgactttttcctcatgtcatggcttcttctagggagCTGGAGGAGCAGTTGAACTGGCACCTGGGTACCTAAAACTGGTCTATGACATTGTACACAAAGCTGGTGGTGTCTGCATTGCTGATGAAGTGCAATGTGG
Basic information
species | Glycine max |
transcript | GLYMA11G36000.1 |
intron # | 4 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GLYMA11G36000.1 (Glycine max), 3'ss of exon 4
lower sequence: GRMZM2G124353_T01 (Zea mays), 3'ss of exon 4
-----------gtataatccatccatca--tgtttaattt--ctaaacttcagagtggtatttatagccacacacaccttagtgtggttttcctatgactttttcctcatgtcatggcttcttc----tagggagCTGGAGGAGCAGTTGAACTGGCACCTGGGTACCTAAAACTGGTCTATGACATTGTACACAAAGCTGGTGGTGTCTGCATTGCTGATGAAGTGCAATGTGG
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gtataaactttgaacagaccatttataaaatgctagaactaattgaaataatatgtatcttttgtttataaacccaattcaaaataacttatccttgtcgcaatcttgttgatacaccatctctgctgtagGGTGTGGGAGGTGCTGTTGAACTAGCTCCTGGATACCTAAAGTTAGCTTATGACATTGTGCGCAAGGCTGGTGGCGTTTGTATTGCTGATGAAGTCCAGA----
upper sequence: GLYMA11G36000.1 (Glycine max), 3'ss of exon 4
lower sequence: AT4G39660.1 (Arabidopsis thaliana), 3'ss of exon 4
gtataatccatccatcatgtttaatttc-taaacttcagagtggtatttatagccacacacaccttagtgtggttttcctatgactttttcctcatgtcatggcttcttctagggagCTGGAGGAGCAGTTGAACTGGCACCTGGGTACCTAAAACTGGTCTATGACATTGTACACAAAGCTGGTGGTGTCTGCATTGCTGATGAAGTGCAATGTGG
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------------gtttttgtttgtttaaacaaaccatcaagtgaaatttagtgatttac-cactctcttg-aacataatcgtcaccatgccattat--catttttacttc-agGGGGTCGGAGGAGCTGTAGAATTGGCTCCTGGTTACTTAAAGTCGGTTTATGAAATTGTTCGCAACGCTGGTGGTGTATGCATTGCTGATGAAGTCCAAA----
upper sequence: GLYMA11G36000.1 (Glycine max), 3'ss of exon 4
lower sequence: Vv07s0031g01330.t01 (Vitis vinifera), 3'ss of exon 4
gtataatccatccatcatgtttaatttctaaacttcagagtggtatttatagccacacacaccttagtgtggttttcctatgactttttcctcatgtcatggcttcttctagggagCTGGAGGAGCAGTTGAACTGGCACCTGGGTACCTAAAACTGGTCTATGACATTGTACACAAAGCTGGTGGTGTCTGCATTGCTGATGAAGTGCAATGTGG
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gttcatgttaattactctttttgaggtgtaaat---acattgtttcttactac-atgattggaacattatggattccatttcaaaatt--ctcattt--tggaaaactttagGGAGTGGGAGGAGCAGTGGAATTAGCCCCTGGATACTTGAAACTGGTTTATGACATCGTCCGCAAGGCTGGGGGTGTTTGTATTGCTGACGAAGTGCAAA----Mapped 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: TGGCACATCANGAANAGTTGCTGGATTTATAGCTGAAACAATTCAGGGAG CTGGAGGAGCAATTGAACT
genomic: TGGCACATCAGGAAAAGTTGCTGGATTTATAGCTGAAACAATTCAGGCATgtataatcca ... ttctagggagCTGGAGGAGCAGTTGAACT
EST:
gi|21594810|gb|BQ610275.1|BQ610275EST: TGGCACATCAGGAAAAGTTGCTGGATTTATAGCTGAAACAATTCAGGGAG CTGGAGGAGCAGTTGAACTGGCACCTGGGTACCTAAAACTGGTCTATGACA
genomic: TGGCACATCAGGAAAAGTTGCTGGATTTATAGCTGAAACAATTCAGGCATgtataatcca ... ttctagggagCTGGAGGAGCAGTTGAACTGGCACCTGGGTACCTAAAACTGGTCTATGACA
atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.ccttagtgtggttttcctatgactttttcctcatgtcatggcttcttctagggagCTGGAGGAGCAGTTGAACTGGCACCTGGGTACCTAAAACTGGTCTATGACATTGTACACAAAGCTGGTGGTGTCTGCATTGCTGATGAAGTGCAATGTGG
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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gtataatccatccatcatgtttaatttctaaacttcagagtggtatttatagccacacacaccttagtgtggttttcctatgactttttcctcatgtcatggcttcttctagggagCTGGAGGAGCAGTTGAACTGGCACCTGGGTACCTAAAACTGGTCTATGACATTGTACACAAAGCTGGTGGTGTCTGCATTGCTGATGAAGTGCAATGTGG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGCTG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TGGTGG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GCTGAT