Sequence
atgc intronic sequence ATGC exonic sequence...tctttccttgtttatatttacgtatcacaatgaatggagtattagcttgtatttatgcctgcttatttatattttgaataaatgctgtctcatgatgcagGTTCGCTTACATCTTCTTACTGCAGTTATGAAGTGTTTCTTTAAGCGACCACCTGAAACTCAAAAAGCATTAGGAGCTGCATTGGCTGCTGGGCTTGCTG
Basic information
species | Glycine max |
transcript | GLYMA04G08480.1 |
intron # | 7 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GLYMA04G08480.1 (Glycine max), 3'ss of exon 7
lower sequence: LOC_Os01g43630.2 (Oryza sativa), 3'ss of exon 9
tctttccttgtttatatttacgtatcacaatgaatggagtattagcttgtatttatgcctgctt-atttatattt---tgaataaatgctgtctcatgatgcagGTTCGCTTACATCTTCTTACTGCAGTTATGAAGTGTTTCTTTAAGCGACCACCTGAAACTCAAAAAGCATTAGGAGCTGCATTGGCTGCTGGGCTTGCTG
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---attattgtaaaattctatccctttctttagacc-atcatatgcctgtagctacttgtttttgaattctatttcattattcctgtaatattgtactttgcagGTTCGCTTGCATCTCCTGACTGCGGTGATGAAATGTTTCTTTAAGAGGCCACCAGAGACACAAATGGCACTAGGAGCTACATTAACCGCTGGTCTATCTG
upper sequence: GLYMA04G08480.1 (Glycine max), 3'ss of exon 7
lower sequence: AC198725.4_FGT007 (Zea mays), 3'ss of exon 9
tctttccttgtttatatttacgtatcacaatgaatg-----gagtattagcttgtatttatgcctgcttatttatattttgaataaatgctgtctcatgatgcagGTTCGCTTACATCTTCTTACTGCAGTTATGAAGTGTTTCTTTAAGCGACCACCTGAAACTCAAAAAGCATTAGGAGCTGCATTGGCTGCTGGGCTTGCTG
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-aattccatgcatctgctttagattttttcaggatacccctaaccattagctactcattttgagttcc-acttaacttttccattgataatgtatcttga---agGTTCGCTTGCATCTCCTGACAGCAGTGATGAAATGTTTCTTTAAAAGACCTCCAGAGACACAAAAGGCATTAGGAGCTACATTATCAGCTGGTCTATCTG
upper sequence: GLYMA04G08480.1 (Glycine max), 3'ss of exon 7
lower sequence: Vv04s0008g03880.t01 (Vitis vinifera), 3'ss of exon 7
-tctttccttgtttatatttacgtatcacaatgaatggagtattagcttgtatttatgcctgcttatttatattttgaataaatg--ctgtctcatgatgcagGTTCGCTTACATCTTCTTACTGCAGTTATGAAGTGTTTCTTTAAGCGACCACCTGAAACTCAAAAAGCATTAGGAGCTGCATTGGCTGCTGGGCTTGCTG
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attttcttttaagcattgttagaaatttcaa--attcaggtcccaaattctattgttgatta-tggcagtcactttgaggtaatggattatcttgttggacagGTTCGATTGCATCTTCTTACAGCAGTACTCAAGTGTTTCCTGAAAAGGCCTCCTGAGACTCAGAAAGCATTGGGAGCTGCATTGGCTGCTGGTCTTGCTGMapped 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|24205769|gb|BU965022.1|BU965022EST: ATGTCTTGGAGAGTTTAGTTGAAAACTGGGATGAGGAGCATTCTGCTGAG GTTCGCTTACATCTTCTTACTGCAGTTATGAAGTGTTTCTTTAAGCGACCA
genomic: ATGTCTTGGAGAGTTTAGTTGAAAACTGGGATGAGGAGCATTCTGCTGAGgtagttacat ... catgatgcagGTTCGCTTACATCTTCTTACTGCAGTTATGAAGTGTTTCTTTAAGCGACCA
atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.cttgtatttatgcctgcttatttatattttgaataaatgctgtctcatgatgcagGTTCGCTTACATCTTCTTACTGCAGTTATGAAGTGTTTCTTTAAGCGACCACCTGAAACTCAAAAAGCATTAGGAGCTGCATTGGCTGCTGGGCTTGCTG
ctgtctc CT-rich tract
tgcttatttatatttt 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
tctttccttgtttatatttacgtatcacaatgaatggagtattagcttgtatttatgcctgcttatttatattttgaataaatgctgtctcatgatgcagGTTCGCTTACATCTTCTTACTGCAGTTATGAAGTGTTTCTTTAAGCGACCACCTGAAACTCAAAAAGCATTAGGAGCTGCATTGGCTGCTGGGCTTGCTG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GGAGCT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGCTGC
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GCTGCT
- -ttccttg
- - - - - - - - - - - - - - - tgaatgg
- - - - - - - - - - - - - - - - - - - - - - gcttgta
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - tgctgtc