Sequence
atgc intronic sequence ATGC exonic sequencegtctgcacttctttcaatgtagcagtatatatttttgtgtgccgtgtaagtacatcagattaatatctctctgaatttcagGTTTATATAATTGGAGGAGATGGAACTCAGAAGGGTGCATCTGCAATTTTTGAG
Basic information
species | Glycine max |
transcript | GLYMA07G15170.1 |
intron # | 6 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GLYMA07G15170.1 (Glycine max), 3'ss of exon 6
lower sequence: LOC_Os05g44922.1 (Oryza sativa), 3'ss of exon 6
--gtctgcacttctttcaatgtagcagtatatatttttgtgtgccgtgtaagtacatcagattaatatctctctgaatttcagGTTTATATAATTGGAGGAGATGGAACTCAGAAGGGTGCATCTGCAATTTTTGAG
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gtaaatgcggttgtttgcacctatgtg-atatagctct-tctgattggtcattgtctcatgtgcttatgtacatta--cccagGTCTATATCATTGGAGGAGATGGAACACAGAAGGGTGCATATGAGATCTTCAAG
upper sequence: GLYMA07G15170.1 (Glycine max), 3'ss of exon 6
lower sequence: GRMZM2G004932_T01 (Zea mays), 3'ss of exon 6
---gtctgcacttctttcaatgtagcagtatatatttttgtgtgccgtgtaagtacatcagattaatatctctctgaatttcagGTTTATATAATTGGAGGAGATGGAACTCAGAAGGGTGCATCTGCAATTTTTGAG
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gtaaacatgattgcacctattgatataacacataactcttctgattggagaagttgactgatatactagagcgccttatc-cagGTGTATATCATTGGAGGAGATGGAACTCAGAAGGGAGCATATGAGATCTTCAAG
upper sequence: GLYMA07G15170.1 (Glycine max), 3'ss of exon 6
lower sequence: GRMZM5G879882_T03 (Zea mays), 3'ss of exon 6
gtctgcacttctt--tcaatgtagcagtatatatttttgtgtgccgtgtaagtacatcagattaatatctctctgaatttcagGTTTATATAATTGGAGGAGATGGAACTCAGAAGGGTGCATCTGCAATTTTTGAG
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gtatgtgcttgctgattagtgtttctttgcataaccct---tattttggaggttgagtaaatgttcttctttaccacatctagGTGTTCATTATAGGAGGAGATGGAACTCAGAAGGGTGCATATGAGATTTACAAG
upper sequence: GLYMA07G15170.1 (Glycine max), 3'ss of exon 6
lower sequence: Vv11s0016g02850.t01 (Vitis vinifera), 3'ss of exon 6
---------------------------------------------gtctgcacttctttcaatgtagca-gtatatatttttgtgtgccgtgtaagtacatcagattaatatctctctgaatttcagGTTTATATAATTGGAGGAGATGGAACTCAGAAGGGTGCATCTGCAATTTTTGAG
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gtctgtagacaatactatttcttgtccaagttatctgagtcacactttcggagttttgtgtatttgctacacctgggcacacctcttcaatgcatggacgttagatttatagctttgttgatctcagGTTTACATAATTGGAGGTGATGGAACTCAAAAAGGGGCATCTGTGATTTTTGAG
upper sequence: GLYMA07G15170.1 (Glycine max), 3'ss of exon 6
lower sequence: PP1S282_45V6.1 (Physcomitrella patens), 3'ss of exon 6
--------gtctgcacttctttcaatgtagcagtatatatttttgtgtgccgtgta--------agtacatcagat----taatatctctctgaatttcagGTTTATATAATTGGAGGAGATGGAACTCAGAAGGGTGCATCTGCAATTTTTGAG
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tgaagatcgcttcaaaacttttcgatgccggcctcagtcacctcatcaacctcgtattttttgcaatacagctcaccctgtgacattgatttga-cttcagGTCTATATCATTGGAGGAGATGGCACTCAGAAAGGAGCTAATGCTATCCACGAGMapped 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|7591258|gb|AW706995.1|AW706995EST: ATGACACCAAAAAGATAGTTGACAGTATTCAAGATCGGGGAATCAATCAG GTTTATATAATTGGAGGAGATGGAACTCAGAAGGGTGCATCTGCAATTTTT
genomic: ATGACACCAAAAAGATAGTTGACAGTATTCAAGATCGGGGAATCAATCAGgtctgcactt ... tgaatttcagGTTTATATAATTGGAGGAGATGGAACTCAGAAGGGTGCATCTGCAATTTTT
atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.atatatttttgtgtgccgtgtaagtacatcagattaatatctctctgaatttcagGTTTATATAATTGGAGGAGATGGAACTCAGAAGGGTGCATCTGCAATTTTTGAG
gattaat putative branch site (score: 3)
tatctctct CT-rich tract
agattaatat 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gtctgcacttctttcaatgtagcagtatatatttttgtgtgccgtgtaagtacatcagattaatatctctctgaatttcagGTTTATATAATTGGAGGAGATGGAACTCAGAAGGGTGCATCTGCAATTTTTGAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TTGGAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TGGAGG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GGAGGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GAGGAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGGAGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GGAGAT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GAGATG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GATGGA