Sequence
atgc intronic sequence ATGC exonic sequence...tataaccagtctcttctaactaactaactagtcattattgactctcattataaaccctaacttaccttttattcacactttgtttatatctttgtaacagGAGTGGGCAATATGTATGGGAGGACCATCGCCCTAGATCCGGTGTATGGAAGGGATCTAGTGGTGGAGAAGTTATCTGCTTCAGTGGATGCGACGATCAT
Basic information
species | Glycine max |
transcript | GLYMA08G45470.1 |
intron # | 2 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GLYMA08G45470.1 (Glycine max), 3'ss of exon 2
lower sequence: GRMZM2G035928_T01 (Zea mays), 3'ss of exon 2
tataaccagtctcttctaactaac-taactagtcattattgactctcattataaaccctaacttaccttttattcacactttgtttatatctttgtaacagGAGTGGGCAATATGTATGGGAGGACCATCGCCCTAGATCCGGTGTATGGAAGGGATCTAGTGGTGGAGAAGTTATCTGCTTCAGTGGATGCGACGATCAT
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tatccttaggtatggctgataatcatatacatctataagagattctagttatgatagacatctcttcagctaaggattctt-atctatattgatattacagGAGTGGGCAATATGTATGGGAAGATCACCGACCGCGATCTGGTGTCTGGAAAGGCACTAGTGGTGGGGAAGCTATTTCCTTTAGTGGTTGTGATGATGAT
upper sequence: GLYMA08G45470.1 (Glycine max), 3'ss of exon 2
lower sequence: GRMZM2G155422_T01 (Zea mays), 3'ss of exon 2
---tataaccagtctcttctaactaactaactagtcattattgactctcattataaaccctaacttaccttttattcacactttgtttatatctttgtaacagGAGTGGGCAATATGTATGGGAGGACCATCGCCCTAGATCCGGTGTATGGAAGGGATCTAGTGGTGGAGAAGTTATCTGCTTCAGTGGATGCGACGATCAT
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ttgtattaggtatggctcataatcatata--catctataagagattctagttatgatagacatctcttcagctaag-gccttttatctaaattgatattacagGAGTGGGCAATATGTATGGGAAGATCACCGACCACCATCTGGTGTCTGGAAAGGCACTAGTGGTGGGGAGGCTATTTCATTTAGTGGTTGTGATGATGAT
upper sequence: GLYMA08G45470.1 (Glycine max), 3'ss of exon 2
lower sequence: Vv16s0013g00210.t01 (Vitis vinifera), 3'ss of exon 2
------tataaccagtctcttctaac-taactaactagtcattattgactct-cattataaaccctaacttaccttttattcacactttgtttatatctttgtaacagGAGTGGGCAATATGTATGGGAGGACCATCGCCCTAGATCCGGTGTATGGAAGGGATCTAGTGGTGGAGAAGTTATCTGCTTCAGTGGATGCGACGATCAT
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tgttttaaaaaatagaaaatagaaatgcatcaaaatggatactatcattttttccttgtccattccaccttgc---ttatggatatttcctttatg-----gacatagAAGCGGACACTATGTATGGGAAGACCATCGCCCTCGATCAGGTGTATGGAAAGGGACAAGTGGTGGGGAGGTCATTTCTTTTAGTGGTTGTGATGATCAT
upper sequence: GLYMA08G45470.1 (Glycine max), 3'ss of exon 2
lower sequence: Vv15s0021g00990.t01 (Vitis vinifera), 3'ss of exon 4
tataaccagtctcttctaactaactaactagtcattattgactctcattataaaccctaacttaccttttattcacactttgtttatat---ctttgtaacagGAGTGGGCAATATGTATGGGAGGACCATCGCCCTAGATCCGGTGTATGGAAGGGATCTAGTGGTGGAGAAGTTATCTGCTTCAGTGGATGCGACGATCAT
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tttactacgggcttagtaacttttgaccaggtccaaattgttcctcaccccaaa---tagttttcctgtcactactgttttacatatttttcctttggaacagGAGTGGACAGTATATATGGGAGGACCATCGCCCTCAATCAGGTGTATGGAAAGGAACAAATGGTGGAGAAGTCATTTCCTTTAGTGGTTGTGATGATGATMapped 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|21887666|gb|BQ740879.1|BQ740879EST: TGCCATAGTGGCACTGTTCTAGATTTGCCATTTCTTTGCAGAATGAACAG GAGTGGGCAATATGTATGGGAGGACCATCGCCCTAGATCCGGTGTATGGAA
genomic: TGCCATAGTGGCACTGTTCTAGATTTGCCATTTCTTTGCAGAATGAACAGgttaccttct ... tttgtaacagGAGTGGGCAATATGTATGGGAGGACCATCGCCCTAGATCCGGTGTATGGAA
atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.cattataaaccctaacttaccttttattcacactttgtttatatctttgtaacagGAGTGGGCAATATGTATGGGAGGACCATCGCCCTAGATCCGGTGTATGGAAGGGATCTAGTGGTGGAGAAGTTATCTGCTTCAGTGGATGCGACGATCAT
aacttac putative branch site (score: 2)
tatcttt putative PPT
tttgtttatatcttt 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
tataaccagtctcttctaactaactaactagtcattattgactctcattataaaccctaacttaccttttattcacactttgtttatatctttgtaacagGAGTGGGCAATATGTATGGGAGGACCATCGCCCTAGATCCGGTGTATGGAAGGGATCTAGTGGTGGAGAAGTTATCTGCTTCAGTGGATGCGACGATCAT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TGGTGG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GGTGGA
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- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GGAGAA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGAAGT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGTGGA