Sequence
atgc intronic sequence ATGC exonic sequenceCTGCTGAGCAGATTTTGGAGAAGAGGAAGATGAACCAAACAATGCTAACTAATCACAGTACTTTGCTTGACTTGCTAGAAATTCCTCAACTCATGGACACgtatgttaaaaaagatagaccatttaattacactcctggaatttccacatactaatgttctcacatattatgacaatcacttcctctgtgagaagccttgtaaattcctatatttttgcag
Basic information
species | Glycine max |
transcript | GLYMA16G22880.1 |
intron # | 2 |
splice site | 5' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GLYMA16G22880.1 (Glycine max), 5'ss of exon 2
lower sequence: GRMZM2G006781_T03 (Zea mays), 5'ss of exon 3
CTGCTGAGCAGATTTTGGAGAAGAGGAAGATGAACCAAACAATGCTAACTAATCACAGTACTTTGCTTGACTTGCTAGAAATTCCTCAACTCATGGACACgtatgttaaaaaagatagaccatttaattacactcctggaatttccacatactaatgttctcacatattatgacaatcacttcctctgtgagaagcct--tgtaaattcctatatttttgcag--------------------------------------------
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CCGCACAACAAATTTTGGAGGAGAGGAAGCTTAATCAAACATTACTAGCCAACCACACTACATTGCTTGACTTGCTTGAAATTCCACAATTGATGGACACgtatgc-----aacttttatcttaccatccc-ctcgtctcgttactttatgtttgagtcatttgttattgacaatgccatttgtttttcataatgcataattttaactgttgtataattgtattgtcgctgaattatgcatgacaatcagtaaacttatgcttgtag
upper sequence: GLYMA16G22880.1 (Glycine max), 5'ss of exon 2
lower sequence: AC235544.1_FGT004 (Zea mays), 5'ss of exon 3
CTGCTGAGCAGATTTTGGAGAAGAGGAAGATGAACCAAACAATGCTAACTAATCACAGTACTTTGCTTGACTTGCTAGAAATTCCTCAACTCATGGACACgtatgttaaaaaagatagaccatttaattacactcctggaatttccacatactaatgttctcacatattatgacaatcacttcctctgtgagaagccttgtaaattcctatatttttgcag------------------------------------
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CTGCACAACAAATTCTGGAGGAGAGGAAGCTTAACCAAACATTACTAGCCAACCACACTACATTGCTTGACTTGCTTGAAATCCCACCATTGATGGACACgtatggaacttttatcttaccattcccttgtctcttt--actttatgtttgagtcggctgttaatgacaatgtcatttgttt--ttcataatgcatagtttcagctgttgtattattgctgaattatgcatgacaatcattaggcttatgcttgtag
upper sequence: GLYMA16G22880.1 (Glycine max), 5'ss of exon 2
lower sequence: AT5G11980.1 (Arabidopsis thaliana), 5'ss of exon 3
CTGCTGAGCAGATTTTGGAGAAGAGGAAGATGAACCAAACAATGCTAACTAATCACAGTACTTTGCTTGACTTGCTAGAAATTCCTCAACTCATGGACACgtatgttaaaaaa------gatagaccatttaattacactcctggaatttccacatactaatgttctcacatattatgacaatcacttcctctgtgagaagccttgtaaatt--cctatatttttg-cag
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CTGCTGAGAATATTTTGGAGAAGAGGAAGATGAACCAAGCATTGCTGGCAAATCACAGCACTCTTCTTGACTTGCTTGAGATTCCTCAGCTTATGGACACgtaagctattagacctcgtgccaacttttttgatctgctttctagtcaatcttta-gcggatcttcttcctggcgttagcaacttctggatgtgtacttatcttttcaaaatgatttgtgtctttgtcag
upper sequence: GLYMA16G22880.1 (Glycine max), 5'ss of exon 2
lower sequence: Vv04s0008g01350.t01 (Vitis vinifera), 5'ss of exon 3
CTGCTGAGCAGATTTTGGAGAAGAGGAAGATGAACCAAACAATGCTAACTAATCACAGTACTTTGCTTGACTTGCTAGAAATTCCTCAACTCATGGACACgtatgt---taaaaaagat----agaccatttaattacactcctggaatttccacatactaatgttctcacata--ttatgacaatcacttcctctgtgagaagccttgtaaattcctatatttttgcag
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CTGCAGAACAGATTTTGGAGGAGAGAAAGATGAACCAAACATTGCTAGCCAATCATAGTACTTTGCTTGACTTGCTTGAAATTCCTCAGCTCATGGACACgtatgtgtttgaaaaagttgtaaagatcacatgttaaattaaaagaagggaaaacatgctagaggtcttaaatggcctatgatatttgctaagcatataa------------------------------Mapped 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|209710788|gb|BW665120.1|BW665120EST: AATCACAGTACTTTGCTTGACTTGCTAGAAATTCCTCAACTCATGGACAC ATGTGTACGGAACGGGAATTATGATGAAGCCCTAGATTTGGAAGCATTTGT
genomic: AATCACAGTACTTTGCTTGACTTGCTAGAAATTCCTCAACTCATGGACACgtatgttaaa ... atttttgcagATGTGTACGGAACGGGAATTATGATGAAGCCCTAGATTTGGAAGCATTTGT
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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
CTGCTGAGCAGATTTTGGAGAAGAGGAAGATGAACCAAACAATGCTAACTAATCACAGTACTTTGCTTGACTTGCTAGAAATTCCTCAACTCATGGACACgtatgttaaaaaagatagaccatttaattacactcctggaatttccacatactaatgttctcacatattatgacaatcacttcctctgtgagaagccttgtaaattcctatatttttgcag
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - CATGGA