Sequence
atgc intronic sequence ATGC exonic sequence...taaaagaataagtggagattacaaagatgttaaaagttcttcaaaactaaagggaaataaaagatgaattttctgaaaattccaacaatttctgttgtagGTTTATGTAGACACATTGGTGAAGAAGGCATATGATAATTGGATGCATGTTATTGAGTATGATGGGAAGTCTCTGATAAATGACAACGAGGATAAGGCTT
Basic information
species | Glycine max |
transcript | GLYMA07G30990.1 |
intron # | 6 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GLYMA07G30990.2 (Glycine max), 3'ss of exon 5
lower sequence: LOC_Os02g08120.1 (Oryza sativa), 3'ss of exon 7
---taaaagaataagtggagattaca-aagatgttaaaagttcttcaaaactaaagggaaataaaagatgaattttctgaaaattccaacaatttctgttgtagGTTTATGTAGACACATTGGTGAAGAAGGCATATGATAATTGGATGCATGTTATTGAGTATGATGGGAAGTCTCTGATAAATGACAA--CGAGGATAAGGCTT
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gagctatgctttatttattctctgcatgagcttttgagaactttaagctattcgtttttaataccatattgactgattggga----tggtattgttcattacagCTCTTTGCTGATGCATTGGTTAAGAAGGCATATGATAATTGGATGTATGCCATTGAATATGATGGTAAAGCTCTCTTGAACTCTAAACCGAAGAAAAAGG--
upper sequence: GLYMA07G30990.2 (Glycine max), 3'ss of exon 5
lower sequence: GRMZM2G451882_T01 (Zea mays), 3'ss of exon 7
taaaagaataagtggagattacaaagatgttaaaagttcttcaaaactaaagggaaataaaag-atgaattttctgaaaattccaac---aatttctgttgtagGTTTATGTAGACACATTGGTGAAGAAGGCATATGATAATTGGATGCATGTTATTGAGTATGATGGGAAGTCTCTGATAAA--TGACAACGAGGATAAGGCTT
| ||| || | | | || || || | |||| || | | | | | || || | ||| ||| | | | || || | | || || ||||||| ||||| ||||||||||| |||||| |||| ||||| |||||||| || ||| | || | | | | | || || |
---tgtagtaattgcctactcaattgaagt-aactctctttcactgctgaggttatttttttgtataaaaacaccactgattagaacttcattgttctttacagCTGTTTGCTGATGCATTGGTAAAGAAAGCATATGATAACTGGATGTATGTCATTGAATATGATGGCAAAGGTCTATTGAACCTTAAACCAAAGAAAAAGG--
upper sequence: GLYMA07G30990.2 (Glycine max), 3'ss of exon 5
lower sequence: Vv00s0181g00220.t01 (Vitis vinifera), 3'ss of exon 8
-----taaaagaataagtggagattacaaagatgttaaaagttcttcaaaactaaagggaaataaaagatgaattttctgaaaattccaacaattt--ctgttgtagGTTTATGTAGACACATTGGTGAAGAAGGCATATGATAATTGGATGCATGTTATTGAGTATGATGGGAAGTCTCTGATAAATGACAACGAGGATAAGGCTT
|||| ||| | | | || || || |||| || | ||| | | |||| | | | ||| | |||| ||| | ||| |||| | ||| || || |||||||||||||||||||| |||||||| |||| | ||||||||||| |||||||| |||| ||| | |||| |
gtttgtaaagaaattact--attttcttaaattgcaaaaaag-----aagaaaaaaagaatggaaaaaagaagcctaagcaaactgccaattgtttggttcttgcagGTCTTTGTGGATACCTTGGTGAAGAAGGCATATGACAATTGGATTAGTGTTGTAGAGTATGATGGCAAGTCTCTTTTAAACTTTAACCAAAGTAAGAGCTMapped 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|33387911|gb|CA851118.1|CA851118EST: TTGCCAACGACCAATATTACTCAGCTGATTCTCTCTCTGAGAATCAAAAG GTTTATGTAGACACATTGGTGAAGAAGGCATATGATAATTGGATGCATGTT
genomic: TTGCCAACGACCAATATTACTCAGCTGATTCTCTCTCTGAGAATCAAAAGgtaagagcac ... tctgttgtagGTTTATGTAGACACATTGGTGAAGAAGGCATATGATAATTGGATGCATGTT
atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.actaaagggaaataaaagatgaattttctgaaaattccaacaatttctgttgtagGTTTATGTAGACACATTGGTGAAGAAGGCATATGATAATTGGATGCATGTTATTGAGTATGATGGGAAGTCTCTGATAAATGACAACGAGGATAAGGCTT
aactaaa putative branch site (score: 2)
tttctgtt putative PPT
aaataaaagatgaatt 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
taaaagaataagtggagattacaaagatgttaaaagttcttcaaaactaaagggaaataaaagatgaattttctgaaaattccaacaatttctgttgtagGTTTATGTAGACACATTGGTGAAGAAGGCATATGATAATTGGATGCATGTTATTGAGTATGATGGGAAGTCTCTGATAAATGACAACGAGGATAAGGCTT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GAGGAT
-aaaagaa
- - - - - - - - - - - - - - - - - - - - -caaaact
- - - - - - - - - - - - - - - - - - - - - - - - - - - aaataaa
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -ccaacaa