Sequence
atgc intronic sequence ATGC exonic sequence...tttcatttgttgaggctaggactggaagtcaaaaccatactagtacccagctttgatgtataagtcgagcaaaatctgaccaatttgccttggtgtgtagATGGTTATGGCCGTGTTTGCATACATATATCATCAGTCATTTGTTGTGCCGCAAACTCTCTCGGTTGAAATGATTTTGGACCAG
Basic information
species | Glycine max |
transcript | GLYMA10G32660.1 |
intron # | 9 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GLYMA10G32660.1 (Glycine max), 3'ss of exon 9
lower sequence: LOC_Os01g55360.1 (Oryza sativa), 3'ss of exon 10
tttcatttgttgag-gctaggactggaagtcaaaaccatactag--tacccagctttgatgt-ataagtcgagcaaaatctgaccaatttgccttggtgtgtagATGGTTATGGCCGTGTTTGCATACATATATCATCAGTCATTTGTTGTGCCGCAAACTCTCTCGGTTGAAATGATTTTGGACCAG
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tttattctggtcagtattagacatgcatgattattttttatcatcctaacaagctttcatgttgcaagttg--ctaaacttgttcctgttcattt--tccccagATGGTTATGGCAGTTTTTGCATACATATATCACCAATCATTCATATCGCCCCAAAACTACTCTGTTGAGCTAATCTTGGAACAG
upper sequence: GLYMA10G32660.1 (Glycine max), 3'ss of exon 9
lower sequence: GRMZM5G825110_T02 (Zea mays), 3'ss of exon 10
tttcatttgttgaggctaggactggaagtcaaaac--catacta--gtacccagctttgatgtataagtcgagcaaaatctgaccaatttgccttggtgtgtagATGGTTATGGCCGTGTTTGCATACATATATCATCAGTCATTTGTTGTGCCGCAAACTCTCTCGGTTGAAATGATTTTGGACCAG
| | | | | | | | |||| | ||||| |||| || | | |||| | | |||| | | |||| || | ||||||||||||| ||||||||||||||||| || |||||||| ||| || || | |||| ||||| || || ||||| |||
tgttgggggaaaaaatcctgccaagctgaagaaaccccgtactataataccagtctgtactctatagcttaacataaattt---ctgcttgctttt-tccccagATGGTTATGGCAGTGTTTGCATACATATACCACCAGTCATTCATTGCACCTCAGAACTTCTCTGTTGAGATAATCTTGGATCAG
upper sequence: GLYMA10G32660.1 (Glycine max), 3'ss of exon 9
lower sequence: GRMZM2G452529_T03 (Zea mays), 3'ss of exon 2
tttcatttgttgaggctaggactggaagtcaaaacc----atactagtacccagctttgatgtataagtcgagcaaaatctgaccaatttgccttggtgtgtagATGGTTATGGCCGTGTTTGCATACATATATCATCAGTCATTTGTTGTGCCGCAAACTCTCTCGGTTGAAATGATTTTGGACCAG
|| | | | | | | ||||| || || |||| || | |||| | | |||| | | ||||||| | ||||||||||||| ||||||||||||||||| || || ||||| ||| || || | |||| ||||| || || ||||| |||
ttgttagggaaaaaatcctgtcaagctgaagaaaccccgtattttattaccagtctgtaggctatagattaacgtaaattt---ctgcttgccttt-tccccagATGGTTATGGCAGTGTTTGCATACATATACCACCAATCATTCATTGCACCTCAGAACTTCTCTGTTGAGATAATCTTGGATCAGMapped 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|22929840|gb|BU546979.1|BU546979EST: GTGATAGTATTCCGGGACATGGTGGAATTACCGACAGAATGGATTGCCAG ATGGTTATGGCCGTGTTTGCATACATATATCATCAGTCATTTGTTGTGCCG
genomic: GTGATAGTATTCCGGGACATGGTGGAATTACCGACAGAATGGATTGCCAGgtagattctt ... tggtgtgtagATGGTTATGGCCGTGTTTGCATACATATATCATCAGTCATTTGTTGTGCCG
EST:
gi|13478930|gb|BG508273.1|BG508273EST: GAATGGATTGCCAG ATGGTTATGGCCGTGTTTGCATACATATATCATCAGTCATTTGTTGTGCCG
genomic: GAATGGATTGCCAGgtagattctt ... tggtgtgtagATGGTTATGGCCGTGTTTGCATACATATATCATCAGTCATTTGTTGTGCCG
atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.cccagctttgatgtataagtcgagcaaaatctgaccaatttgccttggtgtgtagATGGTTATGGCCGTGTTTGCATACATATATCATCAGTCATTTGTTGTGCCGCAAACTCTCTCGGTTGAAATGATTTTGGACCAG
atctgac putative branch site (score: 3)
tttgcctt putative PPT
atgtataa 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
tttcatttgttgaggctaggactggaagtcaaaaccatactagtacccagctttgatgtataagtcgagcaaaatctgaccaatttgccttggtgtgtagATGGTTATGGCCGTGTTTGCATACATATATCATCAGTCATTTGTTGTGCCGCAAACTCTCTCGGTTGAAATGATTTTGGACCAG
- - - - gttgagg
- - - - - - - - - - - - - - -caaaacc
- - - - - - - - - - - - - - - - - - - - - - -cccagct
- - - - - - - - - - - - - - - - - - - - - - - - - - -tgatgta
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -ctgacca