Sequence
atgc intronic sequence ATGC exonic sequencegtaaaaatttgttccagttttgattcagatatttaaaatatggttcaacagataaacttgacagtaatacaactttcagGACATAACCGGCACATGGGCCATTTAGCTTGGGCCGATGCATTTGTTGTCACAGCAGATTCAGTTAGCATGATAAGTGAAGCATGCAGCACTGG
Basic information
species | Glycine max |
transcript | GLYMA11G18750.1 |
intron # | 7 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GLYMA11G18750.1 (Glycine max), 3'ss of exon 7
lower sequence: AT5G22350.1 (Arabidopsis thaliana), 3'ss of exon 7
----gtaaaaatttgttccagttttgattcagatattta---aaatatggttcaacagataaacttgacagtaa-----tacaact----ttcagGACATAACCGGCACATGGGCCATTTAGCTTGGGCCGATGCATTTGTTGTCACAGCAGATTCAGTTAGCATGATAAGTGAAGCATGCAGCACTGG
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gtacctacaatccagagcaaattttgcttgagctttgtgcacaagtacaatgcgaccacaaaagtttctaatgggtttttaaaattctaattcagAACCAAATCCTTACATGGGGCATCTAGCTTGGGGTGATGCTTTTGTGGTGACAGCAGATTCAGTCAGTCTGATAAGCGAAGCTTGTAGCACCGG
upper sequence: GLYMA11G18750.1 (Glycine max), 3'ss of exon 7
lower sequence: Vv06s0080g00830.t01 (Vitis vinifera), 3'ss of exon 7
------gtaaa-aatttgttccagttt---tgattcagat--atttaaaatatggttcaacagataaacttgacagtaat---acaactttcagGACATAACCGGCACATGGGCCATTTAGCTTGGGCCGATGCATTTGTTGTCACAGCAGATTCAGTTAGCATGATAAGTGAAGCATGCAGCACTGG
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gtaatcttagtcgatttgattctgaatgaatgaataaaatggaactaaaccatgatatgatcatctaatttatatgttgtgtgataatctatagAACCAAATCCACACATGGGACATCTAGCTTGGGCTGATGCTTTTGTTGTCACAGCAGATTCAGTGAGTATGATAAGTGAGGCTTGCAGCACAGG
upper sequence: GLYMA11G18750.1 (Glycine max), 3'ss of exon 7
lower sequence: PP1S82_141V6.1 (Physcomitrella patens), 3'ss of exon 7
-------------------------------------------------------------------------------------gtaaaaatttgttccagttttgattcagatatttaaaatatggttcaacaga----taaacttgacagtaatacaactt-tcagGACATAACCGGCACATGGGCCATTTAGCTTGGGCCGATGCATTTGTTGTCACAGCAGATTCAGTTAGCATGATAAGTGAAGCATGCAGCACTGG
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gtacattgtcataatattctctgacttcattgttttgttagtgatacttctcttaattctactaatatacaatttcctctttcatgtattattctat-ccaattttgttcccagagcttagattttcattttgtgggatgctaaagctcttggaattgattcttgtcagGTCCAAACCCGCACCTTGGACATCTCGCATGGGGGGATGCATTTGTTGTCACAGCTGATTCTGTTAGTATGTTGAGCGAAGCATGCAGCACAGGMapped 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|15288050|gb|BI471941.1|BI471941EST: AGTGAAAGAACTTGGGAGTAATCCAAAAGTTTATATTTGGGATGGGCAAG GACATAACCGGCACATGGGCCATTTAGCTTGGGCCGATGCATTTGTTGTCA
genomic: AGTGAAAGAACTTGGGAGTAATCCAAAAGTTTATATTTGGGATGGGCAAGgtaaaaattt ... caactttcagGACATAACCGGCACATGGGCCATTTAGCTTGGGCCGATGCATTTGTTGTCA
atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.tcagatatttaaaatatggttcaacagataaacttgacagtaatacaactttcagGACATAACCGGCACATGGGCCATTTAGCTTGGGCCGATGCATTTGTTGTCACAGCAGATTCAGTTAGCATGATAAGTGAAGCATGCAGCACTGG
acttgac putative branch site (score: 4)
ctttc putative PPT
tatttaaaatatggtt 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gtaaaaatttgttccagttttgattcagatatttaaaatatggttcaacagataaacttgacagtaatacaactttcagGACATAACCGGCACATGGGCCATTTAGCTTGGGCCGATGCATTTGTTGTCACAGCAGATTCAGTTAGCATGATAAGTGAAGCATGCAGCACTGG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GCAGAT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TGAAGC