Sequence
atgc intronic sequence ATGC exonic sequencegtaagtgacacatcataatagaaacattgatgacatattttggaaagaagcattttttcttcaagaactgtactatgctttttgcagGTAGGTGTGAGGCTTTCAAATGGCAGAGAGTTCTTTGCCAAAACTATAATATCAAATGCTACCAGATGGGATACATTTG
Basic information
species | Glycine max |
transcript | GLYMA02G34060.1 |
intron # | 6 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GLYMA02G34060.1 (Glycine max), 3'ss of exon 6
lower sequence: LOC_Os11g36440.1 (Oryza sativa), 3'ss of exon 6
gtaagtgacacatcataatagaaacattgatgacatattttggaaagaagcattttttcttcaagaactgtactatgcttt-ttgcagGTAGGTGTGAGGCTTTCAAATGGCAGAGAGTTCTTTGCCAAAACTATAATATCAAATGCTACCAGATGGGATACATTTG
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gtaagtt---catcttact-------tagactaaatatct-----ggagcttttatcgacttgttagctgagcatttcattactatagGTTGGAGTCAGGTTATCAAATGGGAAGGAGTTCTTTGCTAAAACAGTGATATCGAATGCTACCAGATGGGATACATTTG
upper sequence: GLYMA02G34060.1 (Glycine max), 3'ss of exon 6
lower sequence: GRMZM2G106531_T01 (Zea mays), 3'ss of exon 6
gtaagtgacacatcataatagaaacattgatgacatattttggaaagaagcattttttcttcaagaactgtactatgctttttgcagGTAGGTGTGAGGCTTTCAAATGGCAGAGAGTTCTTTGCCAAAACTATAATATCAAATGCTACCAGATGGGATACATTTG
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gtgagttacctttagtcctttacagacttaa---atatgtgaacttattgggttttgtatcttagctgagcact-tctgtactccagGTTGGGGTGAGGTTATCAAATGGGAAGGAGTTCTTTGCTAAAACAGTGATATCAAATGCCACCAGATGGGACACGTTTG
upper sequence: GLYMA02G34060.1 (Glycine max), 3'ss of exon 6
lower sequence: GRMZM2G108457_T02 (Zea mays), 3'ss of exon 6
gtaagtgacacatcataatagaaacattgatgacatattttggaaagaagcattttttcttcaagaactgtactatgctttttgcagGTAGGTGTGAGGCTTTCAAATGGCAGAGAGTTCTTTGCCAAAACTATAATATCAAATGCTACCAGATGGGATACATTTG
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----gtgagttatcttactg---acttaaatacctggacttattgggttttgtatcttagctgtgaactt--ctgtactc----cagGTTGGGGTGAGGTTGTCAAATGGGAAGGAGTTCTTTGCTAAAACGGTGATATCAAATGCCACTAGATGGGACACATTTG
upper sequence: GLYMA02G34060.1 (Glycine max), 3'ss of exon 6
lower sequence: Vv08s0032g00800.t01 (Vitis vinifera), 3'ss of exon 6
gtaagtgacacatca---taatagaaacat--tgatgacatattttggaaagaagcattttttcttcaagaactg-------tactatgcttt---ttgcagGTAGGTGTGAGGCTTTCAAATGGCAGAGAGTTCTTTGCCAAAACTATAATATCAAATGCTACCAGATGGGATACATTTG
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gtgagtttgaccttagtcttgtggatagatgatgttaaaattcctatacttggtacttattttatagatgaagtgagatttttattttgctttgcattgtagGTGGGAGTGAAGCTTTCAGATGGAAGGGAGTTCTTTGCCAAAACCATAGTATCTAATGCTACTAGATGGGATACATTTGMapped 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|192316622|gb|FK008243.1|FK008243EST: TAGTTTACAAAGCAAATGTCACCAGTATTATAATTGAGCAGGGCAAAGCT GTAGGTGTGAGGCTTTCAAATGGCAGAGAGTTCTTTGCCAAAACTATAATA
genomic: TAGTTTACAAAGCAAATGTCACCAGTATTATAATTGAGCAGGGCAAAGCTgtaagtgaca ... ctttttgcagGTAGGTGTGAGGCTTTCAAATGGCAGAGAGTTCTTTGCCAAAACTATAATA
EST:
gi|192316621|gb|FK008242.1|FK008242EST: TAGTTTACAAAGCAAATGTCACCAGTATTATAATTGAGCAGGGCAAAGCT GTAGGTGTGAGGCTTTCAAATGGCAGAGAGTTCTTTGCCAAAACTATAATA
genomic: TAGTTTACAAAGCAAATGTCACCAGTATTATAATTGAGCAGGGCAAAGCTgtaagtgaca ... ctttttgcagGTAGGTGTGAGGCTTTCAAATGGCAGAGAGTTCTTTGCCAAAACTATAATA
atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.acatattttggaaagaagcattttttcttcaagaactgtactatgctttttgcagGTAGGTGTGAGGCTTTCAAATGGCAGAGAGTTCTTTGCCAAAACTATAATATCAAATGCTACCAGATGGGATACATTTG
tgcttttt CT-rich tract
attttttctt 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gtaagtgacacatcataatagaaacattgatgacatattttggaaagaagcattttttcttcaagaactgtactatgctttttgcagGTAGGTGTGAGGCTTTCAAATGGCAGAGAGTTCTTTGCCAAAACTATAATATCAAATGCTACCAGATGGGATACATTTG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - CAGATG