Sequence
atgc intronic sequence ATGC exonic sequencegtaataactatgcttggaggaattatttgaattgggtatggtaaatggactttgattctttgagtaacaaatggctgttgtattcagGCTTGTTTCCAAATCATATCCCAAATCCTGAGGACAAAACAGCAATGAAAGCTATAACCCAAGCAGTCCTTGATAACAAAGCTGATCTTGGAATTATCTT
Basic information
species | Glycine max |
transcript | GLYMA10G35490.1 |
intron # | 10 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GLYMA10G35490.2 (Glycine max), 3'ss of exon 8
lower sequence: LOC_Os07g26610.1 (Oryza sativa), 3'ss of exon 9
gtaataactatgcttggaggaattatttgaattgggtatggtaaatggactttgattctttgagtaacaaatggctgttgtattcagGCTTGTTTCCAAATCATATCCCAAATCCTGAGGACAAAACAGCAATGAAAGCTATAACCCAAGCAGTCCTTGATAACAAAGCTGATCTTGGAATTATCTT
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gtaatatctgcacctt------ttcttcatgccggtagtctcgtcttgcctgtcattttacaaattaca-----------tattcagGCATGTTTCCAAATCACATTCCAAATCCTGAGGACAAAACTGCAATGAAAGCCATTACACAAGCTGTGGCCGATAACAAGGCAGACTTGGGCATCATATT
upper sequence: GLYMA10G35490.2 (Glycine max), 3'ss of exon 8
lower sequence: GRMZM2G069676_T03 (Zea mays), 3'ss of exon 9
gtaataactatgcttggaggaattatttgaattgggtatggtaaatggactttgattctttgagtaacaaatggctgttgtattcagGCTTGTTTCCAAATCATATCCCAAATCCTGAGGACAAAACAGCAATGAAAGCTATAACCCAAGCAGTCCTTGATAACAAAGCTGATCTTGGAATTATCTT
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gtaatagct-tgtt------gttttcttcatgcaattataatacct---tttgcttttctcccatttcttatacaccacatatttagGTTTGTTTCCCAATCACATTCCCAACCCTGAGGACAAAACCGCAATGAAGTTTATTACACAAGCAGTTCTTGATAACAAGGCAGACTTAGGCATCATATT
upper sequence: GLYMA10G35490.2 (Glycine max), 3'ss of exon 8
lower sequence: Vv13s0019g04370.t01 (Vitis vinifera), 3'ss of exon 9
gtaataactatgcttggaggaattatttgaattgggtatggtaaatggactttgattctttgagtaacaaatggctgttgtattcagGCTTGTTTCCAAATCATATCCCAAATCCTGAGGACAAAACAGCAATGAAAGCTATAACCCAAGCAGTCCTTGATAACAAAGCTGATCTTGGAATTATCTT
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gtaatatttaaatctaaacaacccccaccccccctttttt-----ttcatattaatggatttgaagaaagatctttgtgtggatcagGCTTGTTTCCGAATCATATTCCTAACCCGGAGGATAAGGAAGCAATGAAAGCCATCACCCAGGCTGTCCTAGCAAACCAGGCTGATCTGGGAATTATCTT
upper sequence: GLYMA10G35490.2 (Glycine max), 3'ss of exon 8
lower sequence: EFJ15375 (Selaginella moellendorffii), 3'ss of exon 7
gtaataactatgcttggaggaattatttgaa-ttgggtatggtaaatggactttgattctttgagtaacaaatggctgttgtattcagGCTTGTTTCCAAATCATATCCCAAATCCTGAGGACAAAACAGCAATGAAAGCTATAACCCAAGCAGTCCTTGATAACAAAGCTGATCTTGGAATTATCTT
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------------------------gtacgaaactctgtttgagaaatgaagtttttaccttc----------tggactttgg---cagGCATGTTTCCGAATCATATTCCCAATCCTGAGGACAAGAAAGCAATGGAAGCCGTGACAAGTGCTGTTCTCAAGCACAAGGCGGACTTGGGGATCATATT
upper sequence: GLYMA10G35490.2 (Glycine max), 3'ss of exon 8
lower sequence: EFJ24972 (Selaginella moellendorffii), 3'ss of exon 7
gtaataactatgcttggaggaattatttgaa-ttgggtatggtaaatggactttgattctttgagtaacaaatggctgttgtattcagGCTTGTTTCCAAATCATATCCCAAATCCTGAGGACAAAACAGCAATGAAAGCTATAACCCAAGCAGTCCTTGATAACAAAGCTGATCTTGGAATTATCTT
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------------------------gtacgaaactctgtttgagaaatgaagtttgt-----------acatctggactttgg---cagGCATGTTTCCGAATCATATTCCCAATCCTGAGGACAAGAAAGCAATGGAAGCCGTGACAAGTGCTGTTCTCAAGCACAAGGCGGACTTGGGGATCATATTMapped 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|193490892|gb|FK455107.1|FK455107EST: CTGGTAGTCAATTTTTGGAGCCTGATG GCTTGTTTCCAAATCATATCCCAAATCCTGAGGACAAGACAGCAATGAAAG
genomic: CTGGGAGTCAATTTTTGGAGCCTGATGgtaataacta ... ttgtattcagGCTTGTTTCCAAATCATATCCCAAATCCTGAGGACAAAACAGCAATGAAAG
atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.tgggtatggtaaatggactttgattctttgagtaacaaatggctgttgtattcagGCTTGTTTCCAAATCATATCCCAAATCCTGAGGACAAAACAGCAATGAAAGCTATAACCCAAGCAGTCCTTGATAACAAAGCTGATCTTGGAATTATCTT
gagtaac putative branch site (score: 2)
taacaaat 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gtaataactatgcttggaggaattatttgaattgggtatggtaaatggactttgattctttgagtaacaaatggctgttgtattcagGCTTGTTTCCAAATCATATCCCAAATCCTGAGGACAAAACAGCAATGAAAGCTATAACCCAAGCAGTCCTTGATAACAAAGCTGATCTTGGAATTATCTT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGCTG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGCTGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GCTGAT