Sequence
atgc intronic sequence ATGC exonic sequence...gaggttaatttcagtcatgacctctaggaattaattatgtcttttgctttgaatattttgtgtttcccattcctaattcaatttttaatatctgccacagGGTCAAACTCAGAGCTTTGATCTTCCTATTAAGAAAAGGAGTGACATCTGTACAATAATGTATACTAGTGGAACTACCGGTGACCCCAAGGGAGTGTTGA
Basic information
species | Glycine max |
transcript | GLYMA11G02030.1 |
intron # | 8 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GLYMA11G02030.1 (Glycine max), 3'ss of exon 8
lower sequence: LOC_Os01g46750.4 (Oryza sativa), 3'ss of exon 5
gaggttaatttcagtcatgacctctaggaattaattatgtcttttgctttgaatattttgtgtttcccattcctaattcaatttttaatatctgccacagGGTCAAACTCAGAGCTTTGATCTTCCTATTAAGAAAAGGAGTGACATCTGTACAATAATGTATACTAGTGGAACTACCGGTGACCCCAAGGGAGTGTTGA---
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ctttctaatttggaaagttgtttc-aagagttcatttta-cacctattttattaggatagcttttcagatattctatttttcacatgacattgtatcttcagGCAGACCAAGAA-TTCGATCTTCCAGTGAAAGCAAAGACTGACATATGTACTATAATGTATACCAGTGGAACTACTGGTGACCCCAAAGGTGTACTGATCT
upper sequence: GLYMA11G02030.1 (Glycine max), 3'ss of exon 8
lower sequence: LOC_Os01g48910.1 (Oryza sativa), 3'ss of exon 8
gaggttaatttcagtcatgacctctaggaattaattatgt---cttttgctttgaat-attttgtgttt-cccattcctaattcaatttttaatatctgccacagGGTCAAACTCAGAGCTTTGATCTTCCTATTAAGAAAAGGAGTGACATCTGTACAATAATGTATACTAGTGGAACTACCGGTGACCCCAAGGGAGTGTTGA
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----cctgtttctgtttcaac-tctacaaaataattttatggacatcagagcaatgtgactttatattcatctggtattaagataattatctgttttacctgcagGGAGGTGAAGAAAAGTATGAACTTCCTACAAAGCAAAAGGATGATATCTGTACAATAATGTACACCAGTGGAACAACTGGTGACCCTAAGGGAGTTTTAA
upper sequence: GLYMA11G02030.1 (Glycine max), 3'ss of exon 8
lower sequence: GRMZM5G861300_T01 (Zea mays), 3'ss of exon 8
gaggttaatttcagtcatgacctctaggaattaattatgtcttttgctttgaatattttgtgtttcccattcctaa--ttcaatttttaatatctg---ccacagG-GTCAAACTCAGAGCTTTGATCTTCCTATTAAGAAAAGGAGTGACATCTGTACAATAATGTATACTAGTGGAACTACCGGTGACCCCAAGGGAGTGTTGA
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tggattagttattgt----acctattggt-ttaactgtataattcatataagaaatttgtgactataaatgcctacccttccatttacatgagctatatctgcagGCGGCTGACCAAGAA-TTTGATCTTCCAGTCAAGGAGAAGGCAGACATATGCACTATAATGTATACTAGTGGAACTACTGGTGACCCAAAAGGAGTACTGA
upper sequence: GLYMA11G02030.1 (Glycine max), 3'ss of exon 8
lower sequence: GRMZM2G152127_T01 (Zea mays), 3'ss of exon 8
------------------------------------------------------------------------------gaggttaatttcagtcatgacctctaggaattaattatgtcttttgctttgaatat---tttgtgtttcccattcctaattcaatttttaatat-ctgcca-cagGGTCAAACTCAGAGCTTTGATCTTCCTATTAAGAAAAGGAGTGACATCTGTACAATAATGTATACTAGTGGAACTACCGGTGACCCCAAGGGAGTGTTGA
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gtaaggttctcctttcctgaccaaatcacacatggaatgaataagtgcttagttacaagaatattaataatgtgttaaggcatgtttttcatttcaaatttatacatttttgggggcatccttgcgagaaatatgccttgatatatcagttagaaaattattttttttctgttctaccaacagGGAGGTAAAGAGAAGTTTGAACTTCCACCCAAGGAAAAGGATGACATATGTACAATAATGTACACCAGTGGAACAACTGGTGATCCTAAGGGAGTACTAA
upper sequence: GLYMA11G02030.1 (Glycine max), 3'ss of exon 8
lower sequence: Vv02s0025g01410.t01 (Vitis vinifera), 3'ss of exon 8
gaggttaatttcagtcatgacctctaggaattaattatgtcttt-tgctttgaatattttgtgtttcccattcctaattcaatttttaatatctgc-cacagGGTCAAACTCAGAGCTTTGATCTTCCTATTAAGAAAAGGAGTGACATCTGTACAATAATGTATACTAGTGGAACTACCGGTGACCCCAAGGGAGTGTTGA
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--agttttctgcatttttccctctttattgttagatacctatttataaacatgctattttgcctatagaaaagttaaagcttgtgtttttgtttgctcacagGGAGATGATAAAAAATTTGATCTTCCATTGACAAAGAAAAACGACATTTGTACAATAATGTACACAAGTGGAACAACCGGTGACCCCAAAGGTGTGATGAMapped 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|192305656|gb|FG998356.1|FG998356EST: TTGAAAGTTTTGGGTTGGCAATATATTCATGGGATGAATTTTTACTAGTG GGTCAAACTCAGAGCTTTGATCTTC
genomic: TTGAAAGTTTTGGGTTGGCAATATATTCATGGGATGAATTTTTACTAGTGgtgggttatt ... tctgccacagGGTCAAACTCAGAGCTTTGATCTTC
atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.gctttgaatattttgtgtttcccattcctaattcaatttttaatatctgccacagGGTCAAACTCAGAGCTTTGATCTTCCTATTAAGAAAAGGAGTGACATCTGTACAATAATGTATACTAGTGGAACTACCGGTGACCCCAAGGGAGTGTTGA
attcctaattcaattt 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gaggttaatttcagtcatgacctctaggaattaattatgtcttttgctttgaatattttgtgtttcccattcctaattcaatttttaatatctgccacagGGTCAAACTCAGAGCTTTGATCTTCCTATTAAGAAAAGGAGTGACATCTGTACAATAATGTATACTAGTGGAACTACCGGTGACCCCAAGGGAGTGTTGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGTGGA
- - - - - - - -catgacc
- - - - - - - - - - - - - - - - - - - - - - tgctttg