Sequence
atgc intronic sequence ATGC exonic sequencegttagtatctacaatgatcctttataggcaccacatttttgtttgttactttaaaaaatttgaaacacatgaagtttccttagcgtatgatgatattattttctctcttttatcattttatttttattgagacaatagatgtttctcctaatcactctctattcaccatagcttttgtcctgtgtgttggcagATAGACAGCAACACAGATGGGCTAGTGGATTTCACCGAGTTTGTGGCAGCTACTTTACATGTACATCAATTGGAGGAACATGATTCTGACAAGTGGCAGC
Basic information
species | Glycine max |
transcript | GLYMA01G37100.1 |
intron # | 11 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GLYMA01G37100.1 (Glycine max), 3'ss of exon 11
lower sequence: LOC_Os07g22710.3 (Oryza sativa), 3'ss of exon 9
gttagtatctacaatgatcctttataggcaccacatttttgtttgttactttaaaaaatttgaaacacatgaagtttccttagcgtatgatgatattattttctctcttttatcattttatttttattgagacaatagatgtttctcctaatcactctctattcaccatagcttttgtcctgtgtgttggcagATAGACAGCAACACAGATGGGCTAGTGGATTTCACCGAGTTTGTGGCAGCTACTTTACATGTACATCAATTGGAGGAACATGATTCTGACAAGTGGCAGC
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--------------------------------------------------------------------------ttaaatttgcatgt----atgcaattgaacggacatcatcaagtt-ttctccttgcaaaggggagtatttgctatcatggc---------ataaagattttcattgc-----tgggcagATTGACAGTAACACAGATGGATTAGTTGATTTCGAAGAGTTTGTTGCTGCAACATTACATGTGCATCAGCTAGTGGAACATGATACTGAGAAGTGGAAAT
upper sequence: GLYMA01G37100.1 (Glycine max), 3'ss of exon 11
lower sequence: AT5G66210.2 (Arabidopsis thaliana), 3'ss of exon 11
gttagtatctacaatgatcctttataggcaccacatttttgtttgttactttaaaaaatttgaaacacatgaagtttccttagcgtatgatgatattattttctctcttttatcattttatttttattgagacaatagatgtttctcctaatcactctctattcaccata-gcttttgtcctgtgtgttggcagATAGACAGCAACACAGATGGGCTAGTGGATTTCACCGAGTTTGTGGCAGCTACTTTACATGTACATCAATTGGAGGAACATGATTCTGACAAGTGGCAGC
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--------------------------------------------------------------------------------------gtagttatatt-tttgttttccattgcaattgcatctctg--ggggtatcagagggagacgtagtttcataatgagccgttgtgtacttgtatctttgctggtcacagATTGATAGCAACACTGATGGGTTAGTGGACTTCACAGAGTTTGTAGCAGCAGCTCTACATGTTCATCAACTAGAAGAACATGATTCAGAGAAATGGCAGC
upper sequence: GLYMA01G37100.1 (Glycine max), 3'ss of exon 11
lower sequence: AT4G36070.1 (Arabidopsis thaliana), 3'ss of exon 10
gttagtatctacaatgatcctttataggcaccacatttttgtttgttactttaaaaaatttgaaacacatgaagtttccttagcgtatgatgatattattttctctcttttatcattttatttttattgagacaatagatgtttctcctaatcactc-tctattcaccatagcttttgtcctgtgtgttggcagATAGACAGCAACACAGATGGGCTAGTGGATTTCACCGAGTTTGTGGCAGCTACTTTACATGTACATCAATTGGAGGAACATGATTCTGACAAGTGGCAGC
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-----------------------------------------------------------------------------------------------------------gtaggtaaacttagagtattaggactaattaaagccccttcgacaggttagtttatcatccaaaatgtttat---gtgtctctgcagAATGATAGCAACACTGATGGTTTGGTGGATTTCACTGAGTTTGTGGTGGCTGCTTTGCACGTGAACCAATTGGAGGAGCATGACTCTGAGAAGTGGCAAC
upper sequence: GLYMA01G37100.1 (Glycine max), 3'ss of exon 11
lower sequence: Vv04s0023g03420.t01 (Vitis vinifera), 3'ss of exon 10
gttagtatctacaatgatcctttataggcaccacatttttgtttgttactttaaaaaatttgaaacacatgaagtttccttagcgtatgatgatattattttctctcttttatcattttatttttattgagacaatagatgtttctcctaatcactctctattcaccatagcttttgtcctgtgtgtt-ggcagATAGACAGCAACACAGATGGGCTAGTGGATTTCACCGAGTTTGTGGCAGCTACTTTACATGTACATCAATTGGAGGAACATGATTCTGACAAGTGGCAGC
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------------------------------------------------------------------------------------------tgacaa-atgttcatcaccctacttccctctttatgttgtg--gatattttttcctttctatggtctggtatcc-taatgggagctaccatttgcctgaggcagATTGACAGCAATACAGATGGGCTTGTGGATTTTACCGAGTTTGTTGCAGCCACTCTACACGTGCATCAATTGGAGGAACATGACTCTGATAAGTGGCGACMapped 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|207835058|gb|GD809115.1|GD809115EST: ATCAACCTTGGAAGTTGAAAGAATCACGTGTGCTAGAGATATTGCAAGCG ATAGACAGCAACACAGATGGGCTAGTGGATTTCACCGAGTTTGTGGCAGCT
genomic: ATCAACCTTGGAAGTTGAAAGAATCACGTGTGCTAGAGATATTGCAAGCGgttagtatct ... gtgttggcagATAGACAGCAACACAGATGGGCTAGTGGATTTCACCGAGTTTGTGGCAGCT
atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.atgtttctcctaatcactctctattcaccatagcttttgtcctgtgtgttggcagATAGACAGCAACACAGATGGGCTAGTGGATTTCACCGAGTTTGTGGCAGCTACTTTACATGTACATCAATTGGAGGAACATGATTCTGACAAGTGGCAGC
tcctaat putative branch site (score: 2)
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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gttagtatctacaatgatcctttataggcaccacatttttgtttgttactttaaaaaatttgaaacacatgaagtttccttagcgtatgatgatattattttctctcttttatcattttatttttattgagacaatagatgtttctcctaatcactctctattcaccatagcttttgtcctgtgtgttggcagATAGACAGCAACACAGATGGGCTAGTGGATTTCACCGAGTTTGTGGCAGCTACTTTACATGTACATCAATTGGAGGAACATGATTCTGACAAGTGGCAGC
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TTGGAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TGGAGG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GGAGGA