Sequence
atgc intronic sequence ATGC exonic sequence...acaaaaaaaatcgccatgttatgacactatgagaaaatgaattttttgagaaagatggagaaagaatttgcagtcataatgtttctaccttggaatgcagCACCTTCCTTATGTTCCTACCATAACCAACTACACTCAAGTTTGGTGGGTTCCCAATGTTGTTGTGTCTCATCAGAAGGAGGGCATAGAAGCTCTTCATC
Basic information
species | Glycine max |
transcript | GLYMA11G07720.1 |
intron # | 9 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GLYMA11G07720.1 (Glycine max), 3'ss of exon 9
lower sequence: LOC_Os02g01070.1 (Oryza sativa), 3'ss of exon 7
--------acaaaaaaaatcgccatgttatgacactatgagaaaatgaattttttgagaaagatggagaaagaatttgcagtcataatgtttctaccttggaatgcagCACCTTCCTTATGTTCCTACCATAACCAACTACACTCAAGTTTGGTGGGTTCCCAATGTTGTTGTGTCTCATCAGAAGGAGGGCATAGAAGCTCTTCATC
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ctttttcccccaatacaatcacagtggtctcacaccaaaattttatttacatatatcgtgttactttatcatgaaatgtaa-catctttcctctactgcagT-CACAAAGGACGCTTTATGTTCCGACAATCACCAACTATACTCAAGTTTGGTGGGTTCCTAATGTTGTTGTTGCCCACGAAAAAGAAGGGATAGAGGCTG------
upper sequence: GLYMA11G07720.1 (Glycine max), 3'ss of exon 9
lower sequence: AT3G51050.1 (Arabidopsis thaliana), 3'ss of exon 9
acaaaaaaaatcgccatgttatgacactatgagaaaatgaattttttgagaaagatggagaaagaatttgcagtcataatgtttctaccttggaatgcagCACCTTCCTTATGTTCCTACCATAACCAACTACACTCAAGTTTGGTGGGTTCCCAATGTTGTTGTGTCTCATCAGAAGGAGGGCATAGAAGCTCTTCATC
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-----------------gtgaagctcttat-aaaacgtgaactacccacatcaaaaataccaatatttgtttatgatagcaaagcaacatgttgatgcagGGTATGCAATACATTCCGACGATAACTAATTACACGAAGCTTTGGTGGGTTCCTAATGTTGTTGTGGCTCATCAAAAGGAAGGAATTGAAGCTATTCATT
upper sequence: GLYMA11G07720.1 (Glycine max), 3'ss of exon 9
lower sequence: Vv04s0023g02750.t01 (Vitis vinifera), 3'ss of exon 9
acaaaaaaaatcgccatgtta-tgacactatgagaaaatgaattttttga--gaaagatggagaaagaatttgca--gtcataa--tgtttctaccttggaatgcagCACCTTCCTTATGTTCCTACCATAACCAACTACACTCAAGTTTGGTGGGTTCCCAATGTTGTTGTGTCTCATCAGAAGGAGGGCATAGAAGCTCTTCATC
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-------taattactgtattagtaagaatatcaataaccactttcttgcactggtgagtttatcttgcataaaccatgtcataacctgttttactttcttgatgtagCCGTTGCCTTATGTTCCTACCATAACAAACTACACTCAACTCTGGTGGGTTCCTAATGTTGTTGTGGCTCATCAAAGGGAAGGAATAGAAGCTGTTCACTMapped 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|308098339|gb|HO760080.1|HO760080EST: ACATAATTGGGAAAGCAGCAAGCTATGCTGGTTCAGCAAAATCTAAGAAG CACCTTCCTTATGTTCCTACCATAACCAACTACACTCAAGTTTGGTGGGTT
genomic: ACATAATTGGGAAAGCAGCAAGCTATGCTGGTTCAGCAAAATCTAAGAAGgttaaatgct ... tggaatgcagCACCTTCCTTATGTTCCTACCATAACCAACTACACTCAAGTTTGGTGGGTT
atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.ttgagaaagatggagaaagaatttgcagtcataatgtttctaccttggaatgcagCACCTTCCTTATGTTCCTACCATAACCAACTACACTCAAGTTTGGTGGGTTCCCAATGTTGTTGTGTCTCATCAGAAGGAGGGCATAGAAGCTCTTCATC
tttctacctt CT-rich tract
aaagaattt 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
acaaaaaaaatcgccatgttatgacactatgagaaaatgaattttttgagaaagatggagaaagaatttgcagtcataatgtttctaccttggaatgcagCACCTTCCTTATGTTCCTACCATAACCAACTACACTCAAGTTTGGTGGGTTCCCAATGTTGTTGTGTCTCATCAGAAGGAGGGCATAGAAGCTCTTCATC
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGGAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGAAGC
- aaaaaaa
- - - - - - -ccatgtt
- - - - - - - - - - -tgacact
- - - - - - - - - - - - - - - - -aaaatgaa
- - - - - - - - - - - - - - - - - - - - - - - - - - -gatggag
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - tgcagtc