Sequence
atgc intronic sequence ATGC exonic sequence...ttttgtttttttgtttttatcttttgtatcatgtgatgaattcaaaattttcttgtgcatgcacttagtcaactaccaattttctgattatgttgggcagGATATTGTCATGTATGTAAATTCTCCAGGAGGGTCAGTTACAGCTG
Basic information
species | Glycine max |
transcript | GLYMA02G01510.2 |
intron # | 4 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GLYMA02G01510.2 (Glycine max), 3'ss of exon 4
lower sequence: GRMZM2G121456_T01 (Zea mays), 3'ss of exon 4
ttttgtttttttgttt--ttatcttttgtatcatgtgatgaattcaaaattttcttgtgcatgcacttagtcaactaccaattttctgattatgttgg-gcagGATATTGTCATGTATGTAAATTCTCCAGGAGGGTCAGTTACAGCTG
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--ttgccatttcatctagctagggactcgaatacatggcaattatatattcaaaacgtggtttcttcca-tctagtgcatgatccttgtcaaccttcctgtagGATATCATTATGTATGTGAATTCGCCAGGAGGGTCAGTGACAGCTG
upper sequence: GLYMA02G01510.2 (Glycine max), 3'ss of exon 4
lower sequence: AT1G02560.1 (Arabidopsis thaliana), 3'ss of exon 4
ttttgtttttttgtttttatcttttgtatcatgtgatgaattcaaaattttcttgtgcatgcacttagtcaactaccaattttctgattatgttgggcagGATATTGTCATGTATGTAAATTCTCCAGGAGGGTCAGTTACAGCTG
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-----gtcagatattgttgaattctaattcatgtcttg---ttacttgattcagatgttttgctttag---gattctgatatt-tgcttatgttgaacagGATATTGTCATGTATGTTAATTCTCCTGGTGGATCAGTTACAGCTG
upper sequence: GLYMA02G01510.2 (Glycine max), 3'ss of exon 4
lower sequence: Vv07s0005g01530.t01 (Vitis vinifera), 3'ss of exon 4
ttttgtttttttgtttttatcttttgt--atcatgtgatgaattcaaaattttcttgtgcatgcacttagtcaactaccaattttctgattatgttgggcagGATATTGTCATGTATGTAAATTCTCCAGGAGGGTCAGTTACAGCTG
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tttttctatagctctctgactttctattaaacagcttatgaaaattaactaccattatgcaagt-tttcaccattagatcatgtcttgat-attctgaacagGATATTGTCATGTATGTGAACTCTCCAGGAGGATCAGTTACAGCTG
upper sequence: GLYMA02G01510.2 (Glycine max), 3'ss of exon 4
lower sequence: EFJ24258 (Selaginella moellendorffii), 3'ss of exon 3
ttttgtttttttgtttttatcttttgtatcatgtgatgaattcaaaattttcttgtgcatgcacttagtcaactaccaattttctgattatgttgggcagGATATTGTCATGTATGTAAATTCTCCAGGAGGGTCAGTTACAGCTG
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----------------------------------------------gtttgtgggttataacatgtagaagatggttaaagctcgattgattttg--tagGATATTGTCATGTATGTAAATTCACCTGGAGGTTCCGTTACCGCTG
upper sequence: GLYMA02G01510.2 (Glycine max), 3'ss of exon 4
lower sequence: EFJ35520 (Selaginella moellendorffii), 3'ss of exon 3
ttttgtttttttgtttttatcttttgtatcatgtgatgaattcaaaattttcttgtgcatgcacttagtcaactaccaattttctgattatgttgggcagGATATTGTCATGTATGTAAATTCTCCAGGAGGGTCAGTTACAGCTG
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----------------------------------------------gtttgtgggttataacatgtagaagatggttaaagctc-gattggtttttgtagGATATTGTCATGTATGTAAATTCACCTGGAGGTTCCGTTACCGCTGMapped 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|15204414|gb|BI427182.1|BI427182EST: ACATCATAGTTGCTCAGCTCCTGTACCTTGATGCTGTTGATCCTAACAAG GATATTGTCATGTATGTAAATTCTCCAGGAGGGTCAGTTACAGCTG
genomic: ACATCATAGTTGCTCAGCTCCTGTACCTTGATGCTGTTGATCCTAACAAGgtttgttctt ... tgttgggcagGATATTGTCATGTATGTAAATTCTCCAGGAGGGTCAGTTACAGCTG
atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.aattttcttgtgcatgcacttagtcaactaccaattttctgattatgttgggcagGATATTGTCATGTATGTAAATTCTCCAGGAGGGTCAGTTACAGCTG
ttctgat putative branch site (score: 3)
aattttctgattat 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
ttttgtttttttgtttttatcttttgtatcatgtgatgaattcaaaattttcttgtgcatgcacttagtcaactaccaattttctgattatgttgggcagGATATTGTCATGTATGTAAATTCTCCAGGAGGGTCAGTTACAGCTG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - CAGCTG
- - - - - - - - - - - - - - tcatgtg
- - - - - - - - - - - - - - - - - - tgaattc
- - - - - - - - - - - - - - - - - - - - - - - - - - - - -catgcac
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - ctaccaa