Sequence
atgc intronic sequence ATGC exonic sequenceACTGTTGAAGCAGAACGGATATCAGTTGATCATGTTGCTCATCTTAAGCCATCTGATGGTGGTTCAGCTGCTACACAATgtgagtgtttttctagactcttctttgcattattatctttcattaagcctttggagtgggggaagtttttttatttctgttcttattgttaggtaattat...
Basic information
species | Glycine max |
transcript | GLYMA06G47850.1 |
intron # | 5 |
splice site | 5' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GLYMA06G47850.1 (Glycine max), 5'ss of exon 5
lower sequence: LOC_Os08g39070.1 (Oryza sativa), 5'ss of exon 5
ACTGTTGAAGCAGAACGGATATCAGTTGATCATGTTGCTCATCTTAAGCCATCTGATGGTGGTTCAGCTGCTACACAATgtgagtgtttttctagactcttctttgcattattatctttcattaagcctttggagtgggggaagtttttttatttctgttcttattgttaggtaattat------
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ACTGTAGAGGCAGAGAGGATATCTGTTGATCATGTTGCCCATCTCAAACCATCTGATGGTGGCTCTGCGGCGACTCAATgtgagggttcttcttatcatcagtttatgtc-ttacagat-attgagttgtactacccaatatattgtttttggaaaaatgat-actgacagatatatttgagcag
upper sequence: GLYMA06G47850.1 (Glycine max), 5'ss of exon 5
lower sequence: GRMZM2G028089_T01 (Zea mays), 5'ss of exon 5
ACTGTTGAAGCAGAACGGATATCAGTTGATCATGTTGCTCATCTTAAGCCATCTGATGGTGGTTCAGCTGCTACACAATgtgagtgtttt--tctagactcttcttt----gcattattatctttcattaagc--ctttggagtgggggaagtttttttatttctgttcttattgtt--aggtaattat------------------------------------
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ACTGTAGAGGCTGAGAGGATATCTGTGGACCATGTTGCCCATCTCAAACCATCTGATGGTGGTTCAGCAGCAACTCAGTgtaagcattctactttgaagccctctctcaaaacaaatttatgggtcagtgggtgtcttccccgtggctttgctttctcaacaaatagtcatattatccgaggtatttttctggatagaaatgtactaaacgatgcttttgtgcag
upper sequence: GLYMA06G47850.1 (Glycine max), 5'ss of exon 5
lower sequence: AT4G26430.1 (Arabidopsis thaliana), 5'ss of exon 5
ACTGTTGAAGCAGAACGGATATCAGTTGATCATGTTGCTCATCTTAAGCCATCTGATGGTGGTTCAGCTGCTACACAATgtgagtgtttttctagactcttctttgcattattatctttcattaagcctttggagtgggggaagtttttttatttctgttcttattgttaggtaattat
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ACAGTTGAAGCTGAAAGAATATCTGTTGATCATGTTGCACATCTTAAGCCATCTGATGGAGGCTCAGCTGCGACTCAGTgtaagctttattatcacttcatattt--atcataatctgttctt---tctttttcatctgcatggaattttaggttgattcctcgattttgtgcag----
upper sequence: GLYMA06G47850.1 (Glycine max), 5'ss of exon 5
lower sequence: AT5G56280.1 (Arabidopsis thaliana), 5'ss of exon 5
ACTGTTGAAGCAGAACGGATATCAGTTGATCATGTTGCTCATCTTAAGCCATCTGATGGTGGTTCAGCTGCTACACAATgtgagtgtttttctagactcttctttgcattattatctttcattaagcctttggagtgggggaagtttttttatttctgttcttattgttaggtaattat
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ACAGTTGAAGCTGAACGGATATCAGTTGATCATGTTGCACATCTTAAACCATCTGACGGAGGCTCAGCAGCAACCCAGTgtgagccttatgtca--ctaatacatatcatactccacttc-ctgagtcttactgtttttggctgattattcgttcatatgcag----------------
upper sequence: GLYMA06G47850.1 (Glycine max), 5'ss of exon 5
lower sequence: Vv19s0015g01950.t01 (Vitis vinifera), 5'ss of exon 5
ACTGTTGAAGCAGAACGGATATCAGTTGATCATGTTGCTCATCTTAAGCCATCTGATGGTGGTTCAGCTGCTACACAATgtgagtgtttttctagactcttctttgcattattatctttcattaagcctttggagtgggggaagttt-ttttatttctgttcttat--tgttaggtaattat---------------------------------------------------------------
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ACGGTAGAAGCAGAAAGGATCTCAGTTGATCATGTTGCTCATCTTAAACCATCTGATGGAGGTTCTGCTGCAACTCAATgtaagcccttatctccaccatcatttcttgtcttgtctcttaccatttttgcagaaaattataaactagttctacagaagtttttatccttttcaatacatattatgcatttttttaagaaaaaaatcttgtgaatggctttacaactgtggctatgtttgtgcagMapped 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|8670223|gb|BE191330.1|BE191330EST: TCATGTTGCTCATCTTAAGCCATCTGATGGTGGTTCAGCTGCTACACAAT TGGCTGCTCACCTTACTGGTACACACAGTGCCATCAAAATGCTTCATAGCA
genomic: TCATGTTGCTCATCTTAAGCCATCTGATGGTGGTTCAGCTGCTACACAATgtgagtgttt ... cttattacagTGGCTGCTCACCTTACTGGTACACACAGTGCCATCAAAATGCTTCATAGCA
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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
ACTGTTGAAGCAGAACGGATATCAGTTGATCATGTTGCTCATCTTAAGCCATCTGATGGTGGTTCAGCTGCTACACAATgtgagtgtttttctagactcttctttgcattattatctttcattaagcctttggagtgggggaagtttttttatttctgttcttattgttaggtaattat
- - - - - - - - - - - - - - - - - - - - - - - - - - - - TGGTGG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TCAGCT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - CAGCTG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGCTGC
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GCTGCT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -gtggggg