Sequence
atgc intronic sequence ATGC exonic sequence...cagtttattgctatgagtagtttaacaatgggttgtccttttgtgtgtctgtatgcttctgtatatccttctcagttcttgtgggtattttctcttgcagAAGTTAGCAATCAAATGTTGGAACTCTACGAGCAGAATAGACTTCCACCAGCACAGGGAAGTGAAGTAGAAGGAAGTGCTGGAGGAACAAGAGCTGCTTC
Basic information
species | Glycine max |
transcript | GLYMA07G35010.1 |
intron # | 5 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GLYMA07G35010.1 (Glycine max), 3'ss of exon 5
lower sequence: LOC_Os12g30020.2 (Oryza sativa), 3'ss of exon 6
----------cagtttattgctatgagtagtttaacaatgggttgtccttttgtgtgtctgtatgcttctgtatatccttctcagttcttgtgggtattttctcttgcagAAGTTAGCAATCAAATGTTGGAACTCTACGAGCAGAATAGACTTCCACCAGCACAGGGAAGTGAAGTAGAAGGAAGTGCTGGAGGAACAAGAGCTGCTTC
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tatacttatttaactttttgataata-caatttgatcatgacacattcctttctgggttcttgttaaatcagataat------aatgcatgt---ctcccttgattgcagAAGTTAGCAATCAAATGTTGGAGCTGTATGAGCAAAACTGTGCAGCACAGGCACAACCGTCCCATGGAAATGAAGCTGAAGGGAGCTCTGCTAGTGTTCC
upper sequence: GLYMA07G35010.1 (Glycine max), 3'ss of exon 5
lower sequence: Vv00s0125g00270.t01 (Vitis vinifera), 3'ss of exon 5
cagtttattgctatgagtagtttaacaatggg-ttgtccttttgtgtgtctgt---atgcttctgtatatccttctcagttcttgtgggtattttctcttgcagAAGTTAGCAATCAAATGTTGGAACTCTACGAGCAGAATAGACTTCCACCAGCACAGGGAAGTGAAGTAGAAGGAAGTGCTGGAGGAACAAGAGCTGCTTC
|| | || | || | ||||| |||||||||| || | | || || | | ||| | || ||| ||||| ||||||||| |||||||||||||||||||||| || ||||| || ||| | || ||| | || || |||||| | |||| | || | || | | |
---gccatgggcattgctgtttcattcatggggctgtccttttgcgtcttcttcgggtgaacctttttggatttccctaacattatggttatttg-tcttgcagAGATTAGCAATCAAATGTTGGAACTGTATGAGCAAAACAGAGTGCCTCCACCTCAAGGGAGTGAAATGGAAGTTAACGCCAGTGGTGGACTAAACCATAG
upper sequence: GLYMA07G35010.1 (Glycine max), 3'ss of exon 5
lower sequence: PP1S119_132V6.1 (Physcomitrella patens), 3'ss of exon 5
--------cagtttattgctatgagtagtttaacaatgggttgtccttttgtgtgtc----tgtatgcttctgtatatccttctcagttcttgtgggtattttctcttgcagAAGTTAGCAATCAAATGTTGGAACTCTACGAGCAGAATAGACTTCCACCAGCACAGGGAAGTGAAGTA-----GAAGGAAGTGCTGGAGGAACAAGAGCTGCTTC
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gtgaatctcacgttctca-tacttttcgtttaatcagaaagctgcattatctgcattatagtatatgcaatcatcaaaatacttca---ctgataattcgtttgttttgcagAAGTAAGCAATCAAATGTTGGAGCTGTACGAGCAGAACAAA--ACCAATGGTCCAACGGGTTCGCTTGCCAATGATCCAAGTCCCAGCGAATTGAACCGGGG---
upper sequence: GLYMA07G35010.1 (Glycine max), 3'ss of exon 5
lower sequence: PP1S86_187V6.1 (Physcomitrella patens), 3'ss of exon 6
cagtttattgctatgagtagtttaacaatgggttgtccttttgtgtgtctgtatgcttctgtatatccttctcagttcttgtgggtattttctcttg-----cagAAGTTAGCAATCAAATGTTGGAACTCTACGAGCAGAATAGACTTC-CACCAGCACAGGGAAGTGAAGTAGAAGGAAGTGCTGGAGGAACAAGAGCTGCTTC
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---cttgttttaaccgatgttttccaagtagg--atacttgactcttattgcgttgatatttagatcgggcacagatctcataagtgtcagtttttggttttcagAAGTTAGCAATCAGATGTTGGAACTTTACGAGCAGAATAGAAATAACGGCGCAACAGGCTCACTGGCTAACGACCCAAGCCCCAGTGAAATGAACCGGGG-
upper sequence: GLYMA07G35010.1 (Glycine max), 3'ss of exon 5
lower sequence: PP1S119_132V6.2 (Physcomitrella patens), 3'ss of exon 8
cagtttattgc-tatgagtagtttaacaat-gggttgtccttttgtgtgtctgtatgcttctgtatatccttctcagttcttgtgggtatttt----ctcttgcagAAGTTAGCAATCAAATGTTGGAACTCTACGAGCAGAATAGA-CTTCCACCAGCACAGGGAAGTGAAGTA--GAAGGAAGTGCTGGAGGAACAAGAGCTGCTTC
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------ctcgcatgaaaatgtgttggcgttcagatcatttacttttctaccaagccaagtttgattttggttttgatttcgatttcatttcttaaatcttttgcagAAGTAAGCAATCAGATGTTGGAGCTTTACGAGCAGAACAGAACTAACGGCGCAACTGGGCCACTGGCTAACGAACTAAGCCCCAGTG-AACTAGATCGAGG--
upper sequence: GLYMA07G35010.1 (Glycine max), 3'ss of exon 5
lower sequence: EFJ27727 (Selaginella moellendorffii), 3'ss of exon 5
---cagtttattg-ctatgagtagtttaacaatgggttgtccttttgtgtgtctgtatgcttctgtatatccttctcagttcttgtgggtatt---ttctcttgcagAAGTTAGCAATCAAATGTTGGAACTCTACGAGCAGAATAGACTTCCACCAGCACAGGGAAGTGAAGTAGAAGGAAGTGCTGGAGGAACAAGAGCTGCTTC
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gtacgttctctggactttgatagactctagtttccattgttcttttttgtttc---attttcatggtcgtattgagaaagggatgcacgtctcctatttttttgcagAAGTCAGCAATCAAATGCTGGAACTCTACGAGCAGAAC--------------------------------------------------------------Mapped 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|8670063|gb|BE191170.1|BE191170EST: CAAGAATTTGATGTCACCCCACGTCAATTAGAGG AAGTTAGCAATCAAATGTTGGAACTCTACGAGCAGAATAGACTTCCACCAG
genomic: CAAGAATTTGATGTCACCCCACGTCAATTAGAGGgtcggtgtca ... tctcttgcagAAGTTAGCAATCAAATGTTGGAACTCTACGAGCAGAATAGACTTCCACCAG
atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.tgtctgtatgcttctgtatatccttctcagttcttgtgggtattttctcttgcagAAGTTAGCAATCAAATGTTGGAACTCTACGAGCAGAATAGACTTCCACCAGCACAGGGAAGTGAAGTAGAAGGAAGTGCTGGAGGAACAAGAGCTGCTTC
tattttctctt CT-rich tract
tattttct 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
cagtttattgctatgagtagtttaacaatgggttgtccttttgtgtgtctgtatgcttctgtatatccttctcagttcttgtgggtattttctcttgcagAAGTTAGCAATCAAATGTTGGAACTCTACGAGCAGAATAGACTTCCACCAGCACAGGGAAGTGAAGTAGAAGGAAGTGCTGGAGGAACAAGAGCTGCTTC
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGGAA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GCTGGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TGGAGG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GGAGGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGAGCT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGCTGC
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GCTGCT
- - - - tgctatg
- - - - - - - - - - - - - - tgggttg
- - - - - - - - - - - - - - - - - - - - -tgtgtgt
- - - - - - - - - - - - - - - - - - - - - - - - - gtatgct
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - gtgggta