Sequence
atgc intronic sequence ATGC exonic sequencegtatgtatgttataaccaagtatctaatacttgcagatttggttttgctgcagctaaaatgaattttacttgttcagGGTGCTGTATATACGAGATGGCTGCTCATCGCCCTGCTTTTAAAGCTTTT
Basic information
species | Glycine max |
transcript | GLYMA12G09910.1 |
intron # | 9 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GLYMA12G09910.1 (Glycine max), 3'ss of exon 9
lower sequence: GRMZM2G074262_T01 (Zea mays), 3'ss of exon 10
gtatgtatgttataaccaagtatctaatacttgcagatttggttttgctgcagctaaaatgaattttacttgttcagGGTGCTGTATATACGAGATGGCTGCTCATCGCCCTGCTTTTAAAGCTTTT
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gta-atagtttcttacatataaagagatgcttaaatatattaatattagatgcctcttttaactggtgtctttgcagGATGTTGTATGTATGAGATGGCTGCTCATCGACCTGCTTTCAAGGCTTTT
upper sequence: GLYMA12G09910.1 (Glycine max), 3'ss of exon 9
lower sequence: AT3G44200.1 (Arabidopsis thaliana), 3'ss of exon 9
gtatgtatgttataaccaagtatctaatacttgcagatttggttttgctgcagctaaaatgaattttacttgttcagGGTGCTGTATATACGAGATGGCTGCTCATCGCCCTGCTTTTAAAGCTTTT
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gtatgtgtaaccctgtc--ctttgtaaagtttaagatttttgttattgtgaaactaagcctgtatgctggtgaacagGCTGTTGTATATATGAGATGGCTGCGTATCGACCTGCTTTCAAAGCTTTT
upper sequence: GLYMA12G09910.1 (Glycine max), 3'ss of exon 9
lower sequence: Vv06s0009g00690.t01 (Vitis vinifera), 3'ss of exon 9
gtatgtatgttataaccaagtatc-taatacttgcagatttggttttgct-gcagctaaaatgaattttacttgttcagGGTGCTGTATATACGAGATGGCTGCTCATCGCCCTGCTTTTAAAGCTTTT
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--gtatgtgttttcatagtgtctggtgatatttatggatctgcagttgtttgtggctaaattttgcattgct-gatcagGTTGCTGTATGTATGAGATGGCTGCTCATCGCCCTGCATTTAAGGCTTTTMapped 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|5058284|gb|AI736760.1|AI736760EST: ACTGCTTGCTGATATTCCATATGGATTCAAATCTGATATTTGGTCACTAG GGTTGCTGGATATACGAGATGGCTGCTCATCGCCCTGCTTTTAAAGCTTTT
genomic: ACTGCTTGCTGATATTCCATATGGATTCAAATCTGATATTTGGTCACTAGgtatgtatgt ... acttgttcagGGT-GCTGTATATACGAGATGGCTGCTCATCGCCCTGCTTTTAAAGCTTTT
atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.tctaatacttgcagatttggttttgctgcagctaaaatgaattttacttgttcagGGTGCTGTATATACGAGATGGCTGCTCATCGCCCTGCTTTTAAAGCTTTT
agctaaa putative branch site (score: 3)
ttttactt putative PPT
taaaatgaattttact 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gtatgtatgttataaccaagtatctaatacttgcagatttggttttgctgcagctaaaatgaattttacttgttcagGGTGCTGTATATACGAGATGGCTGCTCATCGCCCTGCTTTTAAAGCTTTT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GAGATG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GCTGCT