Sequence
atgc intronic sequence ATGC exonic sequencegtaggcatctcttgagctctctgttcaatttccaatcgttttgttgtactggatggttccagatgtttttttattggataaaacaagtggtggtgtgactgcagTGTCTGAGCTGGAGATGCTTTTTGGGAGGTTGTGGACACAGTGTCAGGAGTGCCAAGGTTCACTTCATCAGGATGTTCTCTGCACCAG
Basic information
species | Glycine max |
transcript | GLYMA06G16110.2 |
intron # | 28 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GLYMA06G16110.2 (Glycine max), 3'ss of exon 28
lower sequence: LOC_Os11g08330.1 (Oryza sativa), 3'ss of exon 28
gtaggcatctcttgagctctctgttcaatttccaatcgttttgttgtactggatggttccagatgtttttttattggataaaacaagtggtggtgtgactgcagTGTCTGAGCTGGAGATGCTTTTTGGGAGGTTGTGGACACAGTGTCAGGAGTGCCAAGGTTCACTTCATCAGGATGTTCTCTGCACCAG
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-------------gtacgatatatcctctcaataagggttt------actgggt--ctcctggcgtttgattactggctgaattaa-tgttaacgt--ctgcagTTTCTGAGCTGGAGATGCTCTTTGGGAGGCTCTGGACGCAGTGCCAGGAGTGCCAAGGCTCCCTTCATCAGGACGTTCTCTGCACAAG
upper sequence: GLYMA06G16110.2 (Glycine max), 3'ss of exon 28
lower sequence: GRMZM2G115245_T01 (Zea mays), 3'ss of exon 12
gtaggcatctcttgagctctctgttcaatttcca-atcgttttgttgtactggatg-gttccagatgtttttttattggataaaacaagtggtggtgtgactgcagTGTCTGAGCTGGAGATGCTTTTTGGGAGGTTGTGGACACAGTGTCAGGAGTGCCAAGGTTCACTTCATCAGGATGTTCTCTGCACCAG
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----gtacgtgctgtacactctgaaatgcatctacattatgcctttggaagcactatgctcctgag--ctaaccactgacagatcaaaattttgcttt--ccgcagTTTCTGACCTGGAGATGCTCTTTGGGAGGCTATGGACACAATGCCAGGAGTGCCAAGGATCTCTGCACCAGGACGTTCTCTGCACAAG
upper sequence: GLYMA06G16110.2 (Glycine max), 3'ss of exon 28
lower sequence: AT5G63960.2 (Arabidopsis thaliana), 3'ss of exon 28
gtaggcatctcttgagctctctgttcaatttccaatcgttttgttgtactggatggttccagatgtttttttattggataaaacaagtg-gtggtgtgactgcagTGTCTGAGCTGGAGATGCTTTTTGGGAGGTTGTGGACACAGTGTCAGGAGTGCCAAGGTTCACTTCATCAGGATGTTCTCTGCACCAG
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---------------------------gtatgctgccgtttttccctttcctatagactctttgatatatctataaaatttgatactttcgttgtgttatt-cagTGGCTGAGCTTGAAGAGGTTTTTGGGAGGCTGTGGACACAGTGCCAGGAGTGTCAAGGCTCTCTTCATCAAGATGTCTTGTGCACCAGMapped 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|193727254|gb|FK666250.1|FK666250EST: TGAGCTGTACTGTAAAACAGTATCTCAAG TGTCTGAGCTGGAGATGCTTTTTGGGAGGCTGTGGACACAGTGTCAGGAGT
genomic: TGAGCTGTACTGTAAAACAGTATCTCAAGgtaggcatct ... gtgactgcagTGTCTGAGCTGGAGATGCTTTTTGGGAGGTTGTGGACACAGTGTCAGGAGT
atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.tggatggttccagatgtttttttattggataaaacaagtggtggtgtgactgcagTGTCTGAGCTGGAGATGCTTTTTGGGAGGTTGTGGACACAGTGTCAGGAGTGCCAAGGTTCACTTCATCAGGATGTTCTCTGCACCAG
atgtttttttattgga 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gtaggcatctcttgagctctctgttcaatttccaatcgttttgttgtactggatggttccagatgtttttttattggataaaacaagtggtggtgtgactgcagTGTCTGAGCTGGAGATGCTTTTTGGGAGGTTGTGGACACAGTGTCAGGAGTGCCAAGGTTCACTTCATCAGGATGTTCTCTGCACCAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGGATG