Sequence
atgc intronic sequence ATGC exonic sequenceTGTGATTCTTATTAGAGATATCCCTGATGCTAAGGAAAGTGGGTTGCTTCACCTTTGTGAGTTTATTGAAGATTGTGAATTCACTTATTTGTCCACACAGgtagtaattttggttttgtcctttgccatttactttgtgtgcttctggatttttatcttttggtaatttttctctctatcccttag
Basic information
species | Glycine max |
transcript | GLYMA11G12610.1 |
intron # | 10 |
splice site | 5' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GLYMA11G12610.1 (Glycine max), 5'ss of exon 10
lower sequence: LOC_Os07g10150.1 (Oryza sativa), 5'ss of exon 10
TGTGATTCTTATTAGAGATATCCCTGATGCTAAGGAAAGTGGGTTGCTTCACCTTTGTGAGTTTATTGAAGATTGTGAATTCACTTATTTGTCCACACAGgtagtaattttggttttgtcctttgc-catttactttgtgtgcttctgg--atttttatcttttggtaatttttctctctatcccttag-----------
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TATCATACTCATTAGAGATATTCCTGATGCAAAAGAAAGTGGTTTATTTCACTTGTGTGAATTCATTGAAGATTGTGAGTTCACTTATATGTCTACTCAGgtaatggccaatctatcattttataaatgtgtattttgcaagtcactagttatttccgaacttaggaggttgtaacttaattgcgacaatgtcatgcttg
upper sequence: GLYMA11G12610.1 (Glycine max), 5'ss of exon 10
lower sequence: GRMZM2G036034_T01 (Zea mays), 5'ss of exon 10
TGTGATTCTTATTAGAGATATCCCTGATGCTAAGGAAAGTGGGTTGCTTCACCTTTGTGAGTTTATTGAAGATTGTGAATTCACTTATTTGTCCACACAGgtagtaattttggttttgtcctttgccatttactttgtgtgcttctggatttttatct-tttggtaatttttctctctatcccttag---------------
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TATTATACTCATTAGAGATATTCCTGATGCAAAGGAAAGCGGTTTATTTCACTTATGCGAATTCATAGAAGATTGTGAATTCACCTATTTGTCCACTCAGgtaatcaattaatcattctgca--agcatgtaatttggaaaatacctgtaagatatcaatttaattatctttttttttgtctaaatggtatttttcttttgt
upper sequence: GLYMA11G12610.1 (Glycine max), 5'ss of exon 10
lower sequence: GRMZM2G178618_T01 (Zea mays), 5'ss of exon 10
TGTGATTCTTATTAGAGATATCCCTGATGCTAAGGAAAGTGGGTTGCTTCACCTTTGTGAGTTTATTGAAGATTGTGAATTCACTTATTTGTCCACACAGgtagtaattttggttttgtcc---tttgccattta------ctttgtgtgcttctggat---ttttatcttttggt--aatttttctctctatcccttag
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TATTATACTCATTAGAGATATTCCTGATGCGAAGGAAAGCGGTTTATTTCACTTATGCGAATTCATAGAAGACTGTGAATTCACCTATTTGTCCACTCAGgtaatcaactaatcattctgcaggcatgtaatttggaaatccgttgtaagatactgatttaatttcattttttgtctaaatgtttttttcttttgtttct
upper sequence: GLYMA11G12610.1 (Glycine max), 5'ss of exon 10
lower sequence: AT4G34450.1 (Arabidopsis thaliana), 5'ss of exon 9
TGTGATTCTTATTAGAGATATCCCTGATGCTAAGGAAAGTGGGTTGCTTCACCTTTGTGAGTTTATTGAAGATTGTGAATTCACTTATTTGTCCACACAGgtagtaattttggttttgtcct----ttgccatttac--tttgtgtgcttctggatt-tttatcttttggtaatttttctctctatcccttag
||||| |||| |||||||| || ||||| ||||||||||| ||||||| || ||||| || |||||||||||||||||||| ||| | || ||||||||| | ||| | || |||| ||| | || |||| | || | | ||||| | |
TGTGACCATTATCAGAGATATTCCGGATGCAAAGGAAAGTGGACTGCTTCATCTATGTGAATTCATTGAAGATTGTGAATTCACATATCTTTCAACACAGgtaattattccatcatccatctggggttgctattaaaaacttatgtgttattgaaatgtttattctcgcacag--------------------
upper sequence: GLYMA11G12610.1 (Glycine max), 5'ss of exon 10
lower sequence: Vv03s0063g02450.t01 (Vitis vinifera), 5'ss of exon 10
TGTGATTCTTATTAGAGATATCCCTGATGCTAAGGAAAGTGGGTTGCTTCACCTTTGTGAGTTTATTGAAGATTGTGAATTCACTTATTTGTCCACACAGgtagtaattttggt--tttgtcctttgccattta----ctttgtgtgcttctggatttttatcttttggtaatttttc---tctctatcccttag-----
||||| || || |||||||| |||||||| || ||||| ||||||||||| || ||||| ||||||||||||||||| ||||| ||| | || |||||||||| | |||| ||| | | ||| | | | |||| | | | ||| || | | || | | | | | |||||
CGTGATCCTCATAAGAGATATTCCTGATGCAAAAGAAAGCGGGTTGCTTCATCTGTGTGAATTTATTGAAGATTGTGAGTTCACCTATCTTTCAACACAGgtagcatttttctccatttaatatctttaattcaagctcatggtgtttatttacttctttgactatagatagtctactcaattttatttccttaattcag
upper sequence: GLYMA11G12610.1 (Glycine max), 5'ss of exon 10
lower sequence: PP1S15_298V6.2 (Physcomitrella patens), 5'ss of exon 9
TGTGATTCTTATTAGAGATATCCCTGATGCTAAGGAAAGTGGGTTGCTTCACCTTTGTGAGTTTATTGAAGATTGTGAATTCACTTATTTGTCCACACAGgt-agtaat--tttggttttgtcctttgccatt------tactttgtgtgcttctggattttta---tcttttggtaatttttctctctatcccttag-----------------------------------------------------------------
| || || ||| | || || |||||||| |||||||| ||| || ||||||||| || |||||||||||||| ||||| || || ||||||| ||||| ||||| | | |||| | |||| || | | | | | || || | || | | | ||| | | | | | |
CCTTATCCTCATTCGTGAGATTCCTGATGCCAAGGAAAGCGGGCTGTCTCACCTTTGCGAATTTATTGAAGATTGCGAATTTACCTACCTGTCCACCCAGgttagtaacgactgcatattgtgttatgccgttgttcaatccgataagacatcttgtataacgagagtcatgagagcactttgttttttctttttaaattggatgaagtgccctggaatatttctcaaccattagtgtgagcatttcattttgttctgtgcag
upper sequence: GLYMA11G12610.1 (Glycine max), 5'ss of exon 10
lower sequence: PP1S276_96V6.1 (Physcomitrella patens), 5'ss of exon 10
TGTGATTCTTATTAGAGATATCCCTGATGCTAAGGAAAGTGGGTTGCTTCACCTTTGTGAGTTTATTGAAGATTGTGAATTCACTTATTTGTCCACACAGgt-agtaatt--ttggttttgtcctttgc-------catttactttgtgtgcttc--tggatttttatcttttggtaatttttctctctatcccttag----------------------------------------------------------------------------------------
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TCTCATCCTCATCCGTGAGATTCCTGATGCTAAGGAAAGCGGACTGTCTCACCTTTGCGAGTTCATAGAAGATTGCGAATTCACCTACCTGTCTACGCAGgttagtaatcactgcgtgttgtgttgtgcggcagtacacttccatgatattttaccttgtacaacggtgttgtagagaaccctctggttttttctttttattaatagaaatgacgactttgccggaacactaaaacatcagtccagcgtgagaaagtcatattttactaaccctttttgattgcagMapped 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|20497719|gb|BQ272649.1|BQ272649EST: ACCTTTGTGAGTTTATTGAAGATTGTGAATTCACTTATTTGTCCACACAG ATACTGCACTTCCTGGGAGTTGAAGGACCAAAAACTTCTGACCCCAGCAAA
genomic: ACCTTTGTGAGTTTATTGAAGATTGTGAATTCACTTATTTGTCCACACAGgtagtaattt ... tatcccttagATACTGCACTTCCTGGGAGTTGAAGGACCAAAAACTTCTGACCCCAGCAAA
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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
TGTGATTCTTATTAGAGATATCCCTGATGCTAAGGAAAGTGGGTTGCTTCACCTTTGTGAGTTTATTGAAGATTGTGAATTCACTTATTTGTCCACACAGgtagtaattttggttttgtcctttgccatttactttgtgtgcttctggatttttatcttttggtaatttttctctctatcccttag
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TTGAAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TGAAGA