Sequence
atgc intronic sequence ATGC exonic sequencegtatgtctcttgttgctttggctattatttttaaatcattgaaagagaatagagacagtcatctatgataacttcttttcagTTTGAAGCATTGGCTTTTGGGAGCACAGCCATGTGTGGAAGAACTACTTTCTGGTGGTGGTTAATATCTGCAATTACATTTTATGGTGCAACCTGGGAGC
Basic information
species | Glycine max |
transcript | GLYMA12G08720.1 |
intron # | 7 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GLYMA12G08720.1 (Glycine max), 3'ss of exon 7
lower sequence: LOC_Os02g02750.4 (Oryza sativa), 3'ss of exon 6
gtatgtctctt-gttgctttggctattatttttaaatcattg-aaagagaatagagacagtcatctatgataacttctttt--cagTTTGAAGCATTGGCTTTTGGGAGCACAGCCATGTGTGGAAGAACTACTTTCTGGTGGTGGTTAATATCTGCAATTACATTTTATGGTGCAACCTGGGAGC
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gtaaggctattcaccaacttttctcccttgcatgtcccaatatacggaaaatcttgtgaactgattgtatttattttatatattagTTTGAGGCCTTGGCTTTTGGAAGCACGGCAATGTGTGGAAAAGCTACCTTCTGGTATTGGTTCATTGCTGCTGTCCCATTTTACTGCGCAACCTGGGAAC
upper sequence: GLYMA12G08720.1 (Glycine max), 3'ss of exon 7
lower sequence: AT1G13560.1 (Arabidopsis thaliana), 3'ss of exon 7
gtatgtc--tcttgttgctttggctattatttttaaatcattgaaagagaatagagacagtcatctatgat--aacttcttttcagTTTGAAGCATTGGCTTTTGGGAGCACAGCCATGTGTGGAAGAACTACTTTCTGGTGGTGGTTAATATCTGCAATTACATTTTATGGTGCAACCTGGGAGC
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gtatgctattatcaatcctttaatctttcttttttaattcagtactcgtcttggagtcgattatgaaggttttaccctaaaaacagTTTGAAGCCATGGCATTTGGAAGCACTGCAATGTGTGGAAGAGATACTTTCTGGTTCTGGGTTATTTCAGCTATTCCATTTTATGGAGCTACATGGGAAC
upper sequence: GLYMA12G08720.1 (Glycine max), 3'ss of exon 7
lower sequence: Vv01s0010g00950.t01 (Vitis vinifera), 3'ss of exon 7
gtatgtctcttgttgctt-tggctattatttttaaatcattgaaagagaatagagacagtcatctatgataacttcttttcagTTTGAAGCATTGGCTTTTGGGAGCACAGCCATGTGTGGAAGAACTACTTTCTGGTGGTGGTTAATATCTGCAATTACATTTTATGGTGCAACCTGGGAGC
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gtatgtatttttttgtctattgttgttattatggagtagtggcaactttattaccttaaaaacttatgttgtctt----tcagTTTGAAACCATGGCTTTTGGGAGCACTGCTATGTGTGGAAGAACTTCTTTCTGGTTCTGGGTAATTTCAGCTGTTCCATTTTATTGTGCAACATGGGAACMapped 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|16996551|gb|BM085923.1|BM085923EST: TGGGTGTGATGCACTTGCTTGCACA TTTGAAGCATTGGCTTTTGGGAGCACAGCCATGTGTGGAAGAACTACTTTC
genomic: TGGGTGTGATGCACTTGCTTGCACAgtatgtctct ... ttcttttcagTTTGAAGCATTGGCTTTTGGGAGCACAGCCATGTGTGGAAGAACTACTTTC
atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.tttttaaatcattgaaagagaatagagacagtcatctatgataacttcttttcagTTTGAAGCATTGGCTTTTGGGAGCACAGCCATGTGTGGAAGAACTACTTTCTGGTGGTGGTTAATATCTGCAATTACATTTTATGGTGCAACCTGGGAGC
tgataac putative branch site (score: 2)
cttcttttc CT-rich tract
aaatcatt 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gtatgtctcttgttgctttggctattatttttaaatcattgaaagagaatagagacagtcatctatgataacttcttttcagTTTGAAGCATTGGCTTTTGGGAGCACAGCCATGTGTGGAAGAACTACTTTCTGGTGGTGGTTAATATCTGCAATTACATTTTATGGTGCAACCTGGGAGC
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TGGTGG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TGGTGG