Sequence
atgc intronic sequence ATGC exonic sequence...tagtctcttgttctttaaacacaacccccccatacctgaaaggattcattttattcaaacattatgtatatgatctaacatacaaggctttgtgttgcagATCATGAGAGATCCTGACACAGGAAATTCCCGTGGTTTTGGCTTCATTAGCTACGATTCATTTGAGGCATCTGATTCAGCCATTGAG
Basic information
species | Glycine max |
transcript | GLYMA09G00310.1 |
intron # | 6 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GLYMA09G00310.1 (Glycine max), 3'ss of exon 6
lower sequence: AT2G18510.1 (Arabidopsis thaliana), 3'ss of exon 6
----------------------------------------tagtctcttgttctttaaac-acaacccccccatacctgaa--aggattcattt-tattcaaacattatgtatatgatctaacatacaaggctttgtgttgcagATCATGAGAGATCCTGACACAGGAAATTCCCGTGGTTTTGGCTTCATTAGCTACGATTCATTTGAGGCATCTGATTCAGCCATTGAG
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gtagtattttttatttcattagattgtagttcatgattcttgatctctttatctgtctcctgtcaccgattcgatagtaaattaggattcatcggtattc---cactgtgga---gaataaatgttagaaacttttcatttcagATAATGAGAGATCCCGATACTGGAAACTCACGAGGTTTTGGTTTCATCAGCTATGACTCCTTTGAAGCATCTGATGCTGCTATTGAG
upper sequence: GLYMA09G00310.1 (Glycine max), 3'ss of exon 6
lower sequence: Vv04s0023g01470.t01 (Vitis vinifera), 3'ss of exon 6
tagtctcttgttctttaaacacaacccc-cccatac-ctgaaaggattcattttattcaaacattatgtatatga-tctaacatacaaggctttgtgttg-cagATCATGAGAGATCCTGACACAGGAAATTCCCGTGGTTTTGGCTTCATTAGCTACGATTCATTTGAGGCATCTGATTCAGCCATTGAG
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----ttaaaaatgcacagggacaatttcatttgtgttctgtgctgactaaaatgatgatgcttctttgcaattgaatatgacgtttggcacttctccttgtcagATAATGAGAGATCCTGATACAGGAAATTCTCGTGGTTTTGGTTTCGTTAGCTATGACTCTTTTGAGGCATCTGATGCAGCTATTGAGMapped 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|16346290|gb|BI971885.1|BI971885EST: ATTGTTACTAATCCAAAG ATCATGAGAGATCCTGACACAGGAAATTCCCGTGGTTTTGGCTTCATTAGC
genomic: ATTGTTACTAATCCAAAGgtttttctct ... tgtgttgcagATCATGAGAGATCCTGACACAGGAAATTCCCGTGGTTTTGGCTTCATTAGC
atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.tcattttattcaaacattatgtatatgatctaacatacaaggctttgtgttgcagATCATGAGAGATCCTGACACAGGAAATTCCCGTGGTTTTGGCTTCATTAGCTACGATTCATTTGAGGCATCTGATTCAGCCATTGAG
atctaac putative branch site (score: 2)
ttattcaaacattatg 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
tagtctcttgttctttaaacacaacccccccatacctgaaaggattcattttattcaaacattatgtatatgatctaacatacaaggctttgtgttgcagATCATGAGAGATCCTGACACAGGAAATTCCCGTGGTTTTGGCTTCATTAGCTACGATTCATTTGAGGCATCTGATTCAGCCATTGAG
- - - cttgttc
- - - - - - - - aaacaca
- - - - - - - - - - - - ccccccc
- - - - - - - - - - - - - - - - -acctgaa
- - - - - - - - - - - - - - - - - - - - - - - - - - - -caaacat
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -acataca