Sequence
atgc intronic sequence ATGC exonic sequencegtgagctctcttctttctactggtgcaaatggtagtgtgttacctatataaagtaaatgttctaaccaattgaaattttttctgtccggtagATCCCACCTACATGATCCGTGCTGTTCCAAGTATTGCATCTGATAATGTACATTGCACTCTCCTTGCTCAAAGTGCTGTTCATGGTGCAATGGCTGGATA
Basic information
species | Glycine max |
transcript | GLYMA07G01710.1 |
intron # | 10 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GLYMA07G01710.1 (Glycine max), 3'ss of exon 10
lower sequence: LOC_Os05g44922.1 (Oryza sativa), 3'ss of exon 12
gtgagctctcttctttctactggtgcaaatggtagtgtgttacctatataaagtaaatgttctaaccaattgaaattttttctgtc-----cggtagATCCCACCTACATGATCCGTGCTGTTCCAAGTATTGCATCTGATAATGTACATTGCACTCTCCTTGCTCAAAGTGCTGTTCATGGTGCAATGGCTGGATA
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gtaa-ctatgtttgcttcacacaggataaggttgttacacatcttattactggtctctattgtactaagttgtgaagttccctattattatttgcagATCCTACCTACATGATCCGAGCTATTCCAAGCAATGCATCAGACAATGTCTACTGCACGCTGCTGGCCCACAGTGCTATTCATGGTGCAATGGCCGGCTA
upper sequence: GLYMA07G01710.1 (Glycine max), 3'ss of exon 10
lower sequence: LOC_Os01g53680.1 (Oryza sativa), 3'ss of exon 12
---------------gtgagctctcttctttctactggtgca-aatggtagt-----gtgttac---ctatataaa---gtaaatgttctaac---------caattgaaattttttctgtc---cggtagATCCCACCTACATGATCCGTGCTGTTCCAAGTATTGCATCTGATAATGTACATTGCACTCTCCTTGCTCAAAGTGCTGTTCATGGTGCAATGGCTGGATA
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gtaaagatcttgtttttatgttcaattctcgatgcacatgcggagtgctagtttgaagtactactttttatatgtatctgagtatctccctatggaatgttgcaataacagcctgttatttctaatggcagATCCAACCTACATGATCCGTGCAATTCCAAGCAATGCATCAGACAATGTCTACTGCACACTGCTGGCGCACAGTGCCATTCATGGGGCAATGGCTGGATA
upper sequence: GLYMA07G01710.1 (Glycine max), 3'ss of exon 10
lower sequence: GRMZM5G879882_T03 (Zea mays), 3'ss of exon 12
gtgagctctcttctttctact-ggtgca---aatggtagtgtgttacctatataaagt-aaatgttctaaccaattgaaattttttctgtccggtagATCCCACCTACATGATCCGTGCTGTTCCAAGTATTGCATCTGATAATGTACATTGCACTCTCCTTGCTCAAAGTGCTGTTCATGGTGCAATGGCTGGATA
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gtaatcgtcttcttttttacttggtgaacgcagtgttagtttgtaatttatagcatgtcaaggaatctgatgaagtgcctgccatttttttatgtagATCCAACTTACATGATCCGTGCTATTCCAAGCAATGCATCAGACAATGTCTATTGCACCCTGCTCGCACATAGTGCCATTCATGGTGCAATGGCGGGATA
upper sequence: GLYMA07G01710.1 (Glycine max), 3'ss of exon 10
lower sequence: PP1S69_13V6.1 (Physcomitrella patens), 3'ss of exon 12
----gtgag-ctctcttctttctactggtgcaaatggtagtgtgttacc-tatataaagtaaatgttctaaccaattgaaattttt--tctgtccggtagATCCCACCTACATGATCCGTGCTGTTCCAAGTATTGCATCTGATAATGTACATTGCACTCTCCTTGCTCAAAGTGCTGTTCATGGTGCAATGGCTGGATA
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gtatacaagaccctacttttaatgtgggctatggttattgtgggctgtagtacgctgaaagagcgctcaacacactaacagttgtggatccgtttggcagATCCAACTTACATGATTCGAGCTGTACCGAGTATTGCATCTGATAATGTTTACTGCACCTTGTTGGCGCATAGTGCCATCCATGGTGCTATGGCTGGTTTMapped 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|8285282|gb|BE022841.1|BE022841EST: GATCACTTCACAAAAAGTCAAAAGATGGATATAACTCTGAAGTACATTG ATCCCACCTACATGATCCGTGCTGTTCCAAGTATTGCATCTGATAATGTAC
genomic: GATCACTTCACAAAAAGTCAAAAGATGGATATAACTCTGAAGTACATTGgtgagctctc ... tgtccggtagATCCCACCTACATGATCCGTGCTGTTCCAAGTATTGCATCTGATAATGTAC
EST:
gi|22525736|gb|BU084547.1|BU084547EST: GATCACTTCACAAAAAGTCAAAAGATGGATATAACTCTGAAGTACATTG ATCCCACCTACATGATCCGTGCTGTTCCAAGTATTGCATCTGATAATGTAC
genomic: GATCACTTCACAAAAAGTCAAAAGATGGATATAACTCTGAAGTACATTGgtgagctctc ... tgtccggtagATCCCACCTACATGATCCGTGCTGTTCCAAGTATTGCATCTGATAATGTAC
atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.tgttacctatataaagtaaatgttctaaccaattgaaattttttctgtccggtagATCCCACCTACATGATCCGTGCTGTTCCAAGTATTGCATCTGATAATGTACATTGCACTCTCCTTGCTCAAAGTGCTGTTCATGGTGCAATGGCTGGATA
ttctaac putative branch site (score: 1)
ttttttctgtcc putative PPT
tatataaagtaaatgt 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gtgagctctcttctttctactggtgcaaatggtagtgtgttacctatataaagtaaatgttctaaccaattgaaattttttctgtccggtagATCCCACCTACATGATCCGTGCTGTTCCAAGTATTGCATCTGATAATGTACATTGCACTCTCCTTGCTCAAAGTGCTGTTCATGGTGCAATGGCTGGATA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GCTGTT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GCTGGA