Sequence
atgc intronic sequence ATGC exonic sequence...atgatcaactttttattgttatgtgactactgttagaatttaggcatgttgttatgggaattcatgaatcaattgttattccattattttctatatacagGTTTACTCAAAGGTAAGTGGAGAACAAACTGCTGAAACACCTACCATTGATGTGAGCTCAAAAGAATTTTATGGTGAGGGATATGATGACAGTGACAAGA
Basic information
species | Glycine max |
transcript | GLYMA11G19550.2 |
intron # | 6 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GLYMA11G19550.2 (Glycine max), 3'ss of exon 6
lower sequence: AT1G08200.1 (Arabidopsis thaliana), 3'ss of exon 7
--atgatcaactttttattgttatgtgactactgttagaatttaggcatgttgttatgggaattcatgaatcaattgttattccattattttctatatacagGTTTACTCAAAGGTAAGTGGAGAACAAACTGCTGAAACACCTACCATTGATGTGAGCTCAAAAGAATTTTATGGTGAGGGATATGATGACAGTGACAAGA
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gtgagaaaaattggtcatag--ataagaatctgagtgattttcgataaaactattatagca---cacgc-tcaaatgttg---caaaacaaaaaatggacagGTCTACGCCAAAGTGAGTGGAGAGACAGCTATCGAGAGTCCAACGATCGACGTGAGCTCCAAAGAGTTTTATGGAGAAGGTTATGATGACAGCGACAAGA
upper sequence: GLYMA11G19550.2 (Glycine max), 3'ss of exon 6
lower sequence: AT2G27860.1 (Arabidopsis thaliana), 3'ss of exon 7
atgatcaactttttattgttatgtgactactgttagaatttaggcatgttgttatgggaattcatgaatcaattgttattccattattttctatatacagGTTTACTCAAAGGTAAGTGGAGAACAAACTGCTGAAACACCTACCATTGATGTGAGCTCAAAAGAATTTTATGGTGAGGGATATGATGACAGTGACAAGA
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gtgaggaagatggatcagttaggaaactatgaaaatagtttgatttctctgtcgctggttctcaattctcaa-----aacgaatcatgttt------cagGTTTACGCAAAAGTGAGTGGAGAAGGAGCCATTGAGAGCCCAACGGTTGATGTTAGCTCCAAAGAGTTTTACGGGGAAGGTTATGATGACAGTGACAAGA
upper sequence: GLYMA11G19550.2 (Glycine max), 3'ss of exon 6
lower sequence: Vv06s0061g01120.t01 (Vitis vinifera), 3'ss of exon 7
atgatcaactttttattgttatgtgactactgttagaatttaggcatgttgttatgggaattcatgaatcaattgttattccattattttctatatacagGTTTACTCAAAGGTAAGTGGAGAACAAACTGCTGAAACACCTACCATTGATGTGAGCTCAAAAGAATTTTATGGTGAGGGATATGATGACAGTGACAAGA
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---gtgaataagcgattggtttat-----ttgatgcaatattgatctttatttttgggactctatatattgat-gtttttcttccattctt------cagGTTTATGCAAAGGTAAGTGGGGAACCTTCTTTGGAGGTACCAACTGTGGATGTAAGCTCCAAAGAATTCTATGGTGAGGGATATGATGACAGTGACAAGA
upper sequence: GLYMA11G19550.2 (Glycine max), 3'ss of exon 6
lower sequence: Vv03s0017g00680.t01 (Vitis vinifera), 3'ss of exon 7
atgatcaactttttattgttatgtgactactgttagaatttaggcatgttgttatgggaattcatgaatcaattgttattccattattttctatatacagGTTTACTCAAAGGTAAGTGGAGAACAAACTGCTGAAACACCTACCATTGATGTGAGCTCAAAAGAATTTTATGGTGAGGGATATGATGACAGTGACAAGA
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gtgaatgagtcattggtttttttgatgcaatatta-atcttaatcttgacctctatggattctatatattgatgact-------tccttccattattcagGTTTATGCAAAGGTGAGTGGGGAACCTTCTTTGGAGGTACCAACTGTTGATGTAAGCTCCAAAGAATTCTATGGTGAAGGATATGATGACAGTGACAAGAMapped 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|8404101|gb|BE059735.1|BE059735EST: GAACCTTCATTTACATTAAAGATGCTATTGAAGCTGTCTTGTTGATGATT GTTTACTCAAAGGTAAGTGGAGAACAAACTGCTGAAACACCTACCATTGAT
genomic: GAACCTTCATTTACATTAAAGATGCTATTGAAGCTGTCTTGTTGATGATTgtacgttcta ... ctatatacagGTTTACTCAAAGGTAAGTGGAGAACAAACTGCTGAAACACCTACCATTGAT
atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.atgttgttatgggaattcatgaatcaattgttattccattattttctatatacagGTTTACTCAAAGGTAAGTGGAGAACAAACTGCTGAAACACCTACCATTGATGTGAGCTCAAAAGAATTTTATGGTGAGGGATATGATGACAGTGACAAGA
ttccattattttct CT-rich tract
aattgttattccatta 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
atgatcaactttttattgttatgtgactactgttagaatttaggcatgttgttatgggaattcatgaatcaattgttattccattattttctatatacagGTTTACTCAAAGGTAAGTGGAGAACAAACTGCTGAAACACCTACCATTGATGTGAGCTCAAAAGAATTTTATGGTGAGGGATATGATGACAGTGACAAGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGCTCA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAAGAA
- - - - - - - - tgttatg
- - - - - - - - - - - - -actactg
- - - - - - - - - - - - - - - - - - - - - -gcatgtt
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - catgaat