Sequence
atgc intronic sequence ATGC exonic sequence...tttttgtttctgaagccattgcttcctttaacatacgtcatgacaagtcacctatgaataagtgatataatattttgtcaacaatcatctgtttttgcagAGTTACAATAGGGATCTTTTCCTATTTCTCTATTTTCTCCTCATCATAGTTTCAGCAATGACTTCCTTTAAGATACATCATGACAAGTCACCATTGTCTG
Basic information
species | Glycine max |
transcript | GLYMA17G04070.1 |
intron # | 5 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GLYMA17G04070.1 (Glycine max), 3'ss of exon 5
lower sequence: GRMZM2G020721_T01 (Zea mays), 3'ss of exon 5
----------------------------------------------------------------------tttttg---tttctgaagccattgcttcctttaacatacgtcatgacaagtcacctatga------ataagtgatataatattttg--tcaacaatcat------------ctgtttttgcagAGTTACAATAGGGATCTTTTCCTATTTCTCTATTTTCTCCTCATCATAGTTTCAGCAATGACTTCCTTTAAGATACATCATGACAAGTCACCATTGTCTG
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gtactgttgtgcagatattgttacagagtctggtcatatgcctttgtgtaaaattgccatttattagaacctttcaaattttctgaagtattcagattgatgaaaaaatatcccagtgcattcttcatgtgccattatatatagtgtaacactttaatccactaacctttttattggtatgcttcatctgcagAATTACAGCCGAGATCTGTTCCTTTTCCTCTACTTTCTTCTTATCATTGTAGCAGCTATGACTTCCTTTAAGGTCCATCAAGACAAGTCATCATTCACAG
upper sequence: GLYMA17G04070.1 (Glycine max), 3'ss of exon 5
lower sequence: Vv05s0077g00620.t01 (Vitis vinifera), 3'ss of exon 5
tttttgtttctgaagccattg--cttcctttaacatacgtcatgacaagtcacctatgaat-aagtgatataatatt-ttgtcaacaat-catctgtttttgcagAGTTACAATAGGGATCTTTTCCTATTTCTCTATTTTCTCCTCATCATAGTTTCAGCAATGACTTCCTTTAAGATACATCATGACAAGTCACCATTGTCTG
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----catgggtgtaaccattaaacatgaatttgttta-gtgataatatttggctactgatttaggtaatttctctttatcattatcattgtgtgtgtgtttgcagAGTTACAACCGGGATCTCTTTATATTTCTCTACTTCCTTCTTATCATAGTTTCAGCAGTGACTTCCTTCAAGGTCCATCATGATAAGTCATCATTCTCTGMapped 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|151405341|gb|EV275155.1|EV275155EST: CTTACTTTTATTTGTGCGACCGCACAGATTTCTTTGCCTCATCCAAAAAG AGTTACAATAGGGATCTTTTCCTATTTCTCTATTTTCTCCTCATCATAGTT
genomic: CTTACTTTTATTTGTGCGACCGCACAGATTTCTTTGCCTCATCCAAAAAGgttcatgact ... gtttttgcagAGTTACAATAGGGATCTTTTCCTATTTCTCTATTTTCTCCTCATCATAGTT
atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.agtcacctatgaataagtgatataatattttgtcaacaatcatctgtttttgcagAGTTACAATAGGGATCTTTTCCTATTTCTCTATTTTCTCCTCATCATAGTTTCAGCAATGACTTCCTTTAAGATACATCATGACAAGTCACCATTGTCTG
tctgttttt CT-rich tract
tatgaataagtgatat 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
tttttgtttctgaagccattgcttcctttaacatacgtcatgacaagtcacctatgaataagtgatataatattttgtcaacaatcatctgtttttgcagAGTTACAATAGGGATCTTTTCCTATTTCTCTATTTTCTCCTCATCATAGTTTCAGCAATGACTTCCTTTAAGATACATCATGACAAGTCACCATTGTCTG
- - -gtttctg
- - - - - - - -ccattgc
- - - - - - - - - - - - - - - - - - -tcatgac
- - - - - - - - - - - - - - - - - - - - - - - - - cctatga