Sequence
atgc intronic sequence ATGC exonic sequencegtgaggatgctggacctctcttggtctgttttccaattctgcctgaccgtgttctgcttgcttttttttttgatctggccattcttgccggctttcttggtttatcggcgtcgcagGATGATGAGCGACTACAAGGTGGAGATGGTGAACGATGGGATGCAGGAATTCTTCGTCGAATTCAAGGGGCCGGCCGAAA
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GRMZM2G053764_T01 (Zea mays), 3'ss of exon 1
lower sequence: GLYMA07G07540.2 (Glycine max), 3'ss of exon 1
gtgaggatgctggacctctcttggtctgtt----ttccaattctgcctgaccg--tgttctgcttgcttttttttttgatctggccattcttgccggctttcttggtttatcggcgtcgcagGATGATGAGCGACTACAAGGTGGAGATGGTGAACGATGGGATGCAGGAATTCTTCGTCGAATTCAAGGGGCCGGCCGAAA
| || || ||| || || || |||| | | | || || ||| | ||||| | || || | ||| || || || | ||||||||||| |||||||||||||||||| | || ||||| ||||| || || | || | ||| | || || || |
---gttttccttttcccttctatttccattaaagttataattttttttttctaattgggtgtctaagtttgactcttgattctgattttgatgttagtttttttttttaat-----taatagGATGATGAGTGACTACAAGGTGGAGATGATTAATGATGGAATGCAAGAGTTTTATGTGCATTTCCATGGACCCAATGAGA
upper sequence: GRMZM2G053764_T01 (Zea mays), 3'ss of exon 1
lower sequence: GLYMA18G46940.1 (Glycine max), 3'ss of exon 1
gtgaggatgctggacctctcttggtctgttttccaattctgcctgaccgtgttctgcttgcttttttttttgatctggccattcttgccggctttcttggtttatcggcgtc-gcagGATGATGAGCGACTACAAGGTGGAGATGGTGAACGATGGGATGCAGGAATTCTTCGTCGAATTCAAGGGGCCGGCCGAAA-
|| || |||||| || || ||| | | | | | | | | | | || |||| | | || || |||| || | | | || | ||||||||||| || ||||||||||||||| | || ||||| ||||| ||||| | || |||| | || || || |
---ttaatcctt--tctctctctctcaattcatcaaagtt-tcaatctttttgttaatggggtctcttccctttctgttcctgattctgggtcctctttgtcttttctcttccgtaggATGATGAGTGATTACAAGGTGGAGATGATTAATGATGGAATGCAAGAATTTTATGTGCAATTTCATGGACCCAATGACAG
upper sequence: GRMZM2G053764_T01 (Zea mays), 3'ss of exon 1
lower sequence: GLYMA08G01940.3 (Glycine max), 3'ss of exon 1
----gtgaggatgctggacctctcttggtctgttttccaattctg----cctgaccgtgttctgcttgcttttttttttgatctggccattcttgccggctttcttggtttatcggcgtcgcagGATGATGAGCGACTACAAGGTGGAGATGGTGAACGATGGGATGCAGGAATTCTTCGTCGAATTCAAGGGGCCGGCCGAAA
|||| | || | | || | | ||||| | ||| | | || ||| | | ||||| || ||| ||| | | | ||| ||| | |||||||||||| || ||||||||||||| ||| |||||||| ||||| || ||||| || |||||| | || || || |
gtctgtgatcttttccgaattttttttttgtattttcgatttcagaaagtgttcttttgcataaattgttgtctttttccatttggggtgcgttg--gattgacatgg---atcagGTCATCAGGATGATGAGTGATTACAAGGTGGAGACGGTCAACGATGGCATGCAAGAGTTCTTTGTGGAATTCCACGGACCCAAAGACA
upper sequence: GRMZM2G053764_T01 (Zea mays), 3'ss of exon 1
lower sequence: GLYMA08G01940.2 (Glycine max), 3'ss of exon 1
gtgaggatgctggacctctcttggtctgttttccaattctg----cctgaccgtgttctgcttgcttttttttttgatctggccattcttgccggctttcttggtttatcggcgtcgcagGATGATGAGCGACTACAAGGTGGAGATGGTGAACGATGGGATGCAGGAATTCTTCGTCGAATTCAAGGGGCCGGCCGAAA
|||| | || | | || | | ||||| | ||| | | || ||| | | ||||| || ||| ||| | | | ||| ||| | |||||||||||| || ||||||||||||| ||| |||||||| ||||| || ||||| || |||||| | || || || |
gtgatcttttccgaattttttttttgtattttcgatttcagaaagtgttcttttgcataaattgttgtctttttccatttggggtgcgttg--gattgacatgg---atcaggtcatcagGATGATGAGTGATTACAAGGTGGAGACGGTCAACGATGGCATGCAAGAGTTCTTTGTGGAATTCCACGGACCCAAAGACA
upper sequence: GRMZM2G053764_T01 (Zea mays), 3'ss of exon 1
lower sequence: GLYMA05G37650.1 (Glycine max), 3'ss of exon 1
----gtgaggatgctggacctctcttggtctgttt--tccaattctgcctgaccgtgt-tctgcttgct-tttttttttgatctggccattcttgccggctttcttggtttatcggcgtcg-cagGATGATGAGCGACTACAAGGTGGAGATGGTGAACGATGGGATGCAGGAATTCTTCGTCGAATTCAAGGGGCCGGCCGAAA
|||| | ||| | | || || | || | || | | ||| | ||| | | |||||| || ||| | ||| | | | ||| | | | | || |||||||||||| || ||||||||||||| | | |||||||| ||||| || ||||| || |||||| | || || || |
gtctgtgatcttttcggaattgtttttgtattttcgatttcataaagtgttcttttgtataaatttgttgtcttttttccatttggggtgtgttg--gattgacatggatcag-gtcatcatcagGATGATGAGTGATTACAAGGTGGAGACGATCAACGATGGCATGCAAGAGTTCTTTGTGGAATTCCACGGACCCAAAGACA
upper sequence: GRMZM2G053764_T01 (Zea mays), 3'ss of exon 1
lower sequence: GLYMA16G03940.2 (Glycine max), 3'ss of exon 1
----------------gtgaggatgctggacctctcttggtctgttttccaattctgcctg--accgtgttctgcttgctttttt---ttttgatctgg---ccattcttgccggctttcttg------gtttatcggcg--tcgcagGATGATGAGCGACTACAAGGTGGAGATGGTGAACGATGGGATGCAGGAATTCTTCGTCGAATTCAAGGGGCCGGCCGAAA
| | | | | | || | || | |||| | | | | |||| ||| | | | ||| ||||| | || ||| | | | ||| |||| || | | ||||||||||| |||||||||||||||||| | || ||||| ||||| || || | || | ||| | || || || |
gttaatccctaatttcttctgttttcctttttttttttacctttcatttccattcaagttataatctttttctatttgggtgtctaagtttgactctggattctgtttttgattgttgttttgttttttgtttttcctcaattaatagGATGATGAGTGACTACAAGGTGGAGATGATTAATGATGGAATGCAAGAGTTTTATGTGCACTTCCATGGACCCAATGAGA
upper sequence: GRMZM2G053764_T01 (Zea mays), 3'ss of exon 1
lower sequence: GLYMA07G07540.1 (Glycine max), 3'ss of exon 1
gtgaggatgctggacctctcttggtctgttttccaattctgcct--gaccgtgttctgcttgctttttttt-----------ttgatctggccattcttgccggctttcttggt-------ttatcggcgtcgcagGATGATGAGCGACTACAAGGTGGAGATGGTGAACGATGGGATGCAGGAATTCTTCGTCGAATTCAAGGGGCCGGCCGAAA
| || | || ||| || | | ||| | |||| | ||| | || |||||| | | | || | || | | | ||| || | || | | ||||||||||| |||||||||||||||||| | || ||||| ||||| || || | || | ||| | || || || |
--gttaatccaccacttcttctgttttccttttcccttctatttccattaaagttataattttttttttctaattgggtgtctaagtttgactcttgattctgattttgatgttagtttttttttttaattaatagGATGATGAGTGACTACAAGGTGGAGATGATTAATGATGGAATGCAAGAGTTTTATGTGCATTTCCATGGACCCAATGAGA
upper sequence: GRMZM2G053764_T01 (Zea mays), 3'ss of exon 1
lower sequence: AT1G63800.1 (Arabidopsis thaliana), 3'ss of exon 1
gtgaggatgctggacctctcttggtctgttttccaattctgcctgaccgtg--ttctgcttgctttttt--ttttgatctggccattcttgccggctttcttggttta--tcggcgtcg-----cagGATGATGAGCGACTACAAGGTGGAGATGGTGAACGATGGGATGCAGGAATTCTTCGTCGAATTCAAGGGGCCGGCCGAAA
| | |||| | | || || || | | ||| || || | || |||| | | || | |||| ||| || ||| ||| | | | || ||||||||||| |||||||||||||||||| | || ||||| ||||| || ||||| |||||||||| || || || |
-----gtaatttttttaatcttattatcttatcagtttattcttgattttgagctccgattttttttctaatgtttgtttggcgatttgattcgatttttttgtgatgatttgatgtgagagtttagGATGATGAGTGACTACAAGGTGGAGATGATCAATGATGGCATGCAAGAGTTCTTTGTCGAATTCAGTGGACCCAAAGACA
upper sequence: GRMZM2G053764_T01 (Zea mays), 3'ss of exon 1
lower sequence: Vv02s0025g00070.t01 (Vitis vinifera), 3'ss of exon 1
gtgaggatgctggacctctcttggtctgttttccaattctgcctgaccgtgttctgcttgcttttttttttgatctggccattcttgccggctttcttggtttatcggcgtcgcagGATGATGAGCGACTACAAGGTGGAGATGGTGAACGATGGGATGCAGGAATTCTTCGTCGAATTCAAGGGGCCGGCCGAAA
|| ||||| || | | || || || ||||||| ||| | || | | || ||| || |||||||||||| || || ||||||||||||||||| ||||| ||||| || |||| ||||| ||| | || || | || |
-----------------------gtaagtttttttgttgggat------ttttttgtgtgttttttttaaggatttaatttgggttttttgtcattgtgtttt------gttccagGATGATGAGTGATTATAAGGTGGAGATGGTGAATGATGGCATGCAAGAGTTCTATGTCGATTTCCATGGACCCGGTGACA
upper sequence: GRMZM2G053764_T01 (Zea mays), 3'ss of exon 1
lower sequence: PP1S37_166V6.1 (Physcomitrella patens), 3'ss of exon 1
gtgaggatgctggacc-tctcttggtctgttttccaattctgcctgaccgtgttctgcttgcttttttttttgatctggccattcttgccggctttcttggtttatcggcgtcgcagGATGATGAGCGACTACAAGGTGGAGATGGTGAACGATGGGATGCAGGAATTCTTCGTCGAATTCAAGGGGCCGGCCGAAA
||| | | || | ||||| ||| || | | | || | ||| | | | || || ||| | | | | ||||||||||| ||||||||||| ||||||||||| ||||| ||| ||||||| || || || | || ||| || |
-----------ggattgtgttgtgattacttttcttgttcgaattggt-gcggtttggggaatcggcaagttgtt---gttgtatctgacga--ttcaagaatgtgtgattgggtagGATGATGAGTGACTACAAGGTCGAGATGGTGAATGATGGAATGAGCGAATTCTATGTGGAGTTTCATGGACCGCGTGAGA
upper sequence: GRMZM2G053764_T01 (Zea mays), 3'ss of exon 1
lower sequence: EFJ23672 (Selaginella moellendorffii), 3'ss of exon 1
---------------gtgaggatgctggacctctcttggtctgttttccaattctgcctgaccgtgttctgcttgcttttttttttgatctggccattc-ttgccggctttcttggtttatcgg----cgtcgcagGATGATGAGCGACTACAAGGTGGAGATGGTGAACGATGGGATGCAGGAATTCTTCGTCGAATTCAAGGGGCCGGCCGAAA
| || | |||| | || | | || ||| | | | ||||| || | |||| |||| |||| | | || | || | | | |||||||||||| |||||||||||||||||||| |||||||||||| | || || || || ||| | || || || |
gtgagtctcgcctcctctcgaatttcaattccttcttcg-ctctccagtggctatgaaaaacctctctttcttcgctttcttcctc--tctgctaattcattgcttcttctttttgcttcccattcctctttccagGATGATGAGTGACTACAAGGTGGAGATGGTAAACGATGGGATGAACGAGTTTAATGTGGAGTTCCATGGACCTCGGGATA
upper sequence: GRMZM2G053764_T01 (Zea mays), 3'ss of exon 1
lower sequence: EFJ34378 (Selaginella moellendorffii), 3'ss of exon 1
gtgaggat-gctggacctc---tcttggtctgttttccaat-tctgcctgaccgtgttctgcttgcttttttttttgatctggccattc-ttgccggctttcttggtttatcgg----cgtcgcagGATGATGAGCGACTACAAGGTGGAGATGGTGAACGATGGGATGCAGGAATTCTTCGTCGAATTCAAGGGGCCGGCCGAAA
||||| | || ||| | | | || | | | || |||| | | | ||||| || | |||| |||| |||| | | || | || | | | |||||||||||| |||||||||||||||||||| |||||||||||| | || || || || ||| | || || || |
gtgagtctcgcctcctctcgaatttcaattccttcttcgctctccagtggacctctctttcttcgctttcttcctc--tctgctaattcattgcttcttctttttgcttcccattcctctttccagGATGATGAGTGACTACAAGGTGGAGATGGTAAACGATGGGATGAACGAGTTTAATGTGGAGTTCCATGGACCTCGGGATAMapped 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|211363205|gb|FL271919.1|FL271919EST: TCCAAGATGTCGTCCCCGAGCAAGCGCCGCGAGATGGACCTTATGAAGCT GATGATGAGCGACTACAAGGTCGAGATGGTGAACGATGGGATGCAGGAATT
genomic: TCCAAGATGTCGTCCCCGAGCAAGCGCCGCGAGATGGACCTTATGAAGCTgtgaggatgc ... ggcgtcgcagGATGATGAGCGACTACAAGGTGGAGATGGTGAACGATGGGATGCAGGAATT
EST:
gi|32859414|gb|CD999095.1|CD999095EST: TCCAAGATGTCGTCCCCGAGCAAGCGCCGCGAGATGGACCTCATGAAGCT GATGATGAGCGACTACAAGGTGGAGATGGTGAACGATGGGATGCAGGAATT
genomic: TCCAAGATGTCGTCCCCGAGCAAGCGCCGCGAGATGGACCTTATGAAGCTgtgaggatgc ... ggcgtcgcagGATGATGAGCGACTACAAGGTGGAGATGGTGAACGATGGGATGCAGGAATT
EST:
gi|50325609|gb|CO520735.1|CO520735EST: TCCAAGATGTCGTCCCCGAGCAAGCGCCGCGAGATGGACCTTATGAAGCT GATGATGAGCGACTACAAGGTGGAGATGGTGAACGATGGGATGCAGGAATT
genomic: TCCAAGATGTCGTCCCCGAGCAAGCGCCGCGAGATGGACCTTATGAAGCTgtgaggatgc ... ggcgtcgcagGATGATGAGCGACTACAAGGTGGAGATGGTGAACGATGGGATGCAGGAATT
EST:
gi|94476395|gb|EB705353.1|EB705353EST: TCCCAGATGTCGTCCCCGAGCAAGCGCCGCGAGATGGACCTTATGAAGCT GATGATGAGCGACTACAAGGTGGAGATGGTGAACGATGGGATGCAGGAATT
genomic: TCCAAGATGTCGTCCCCGAGCAAGCGCCGCGAGATGGACCTTATGAAGCTgtgaggatgc ... ggcgtcgcagGATGATGAGCGACTACAAGGTGGAGATGGTGAACGATGGGATGCAGGAATT
EST:
gi|5895785|gb|AW037031.1|AW037031EST: CCCCGAGCAAGCGCCGCGAGATGGACCTCATGAAGCT GATGATGAGCGACTACAAGGTGGAGATGGTGAACGATGGGATGCAGGAATT
genomic: CCCCGAGCAAGCGCCGCGAGATGGACCTTATGAAGCTgtgaggatgc ... ggcgtcgcagGATGATGAGCGACTACAAGGTGGAGATGGTGAACGATGGGATGCAGGAATT
EST:
gi|211174889|gb|FL306344.1|FL306344EST: TCCAAGATGTCGTCCCCGAGCAAGCGCCGCGAGATGGACCTTATGAAGCT GATGATGAGCGACTACAAGGTGGAGATGGTGAACGATGGGATGCAGGAATT
genomic: TCCAAGATGTCGTCCCCGAGCAAGCGCCGCGAGATGGACCTTATGAAGCTgtgaggatgc ... ggcgtcgcagGATGATGAGCGACTACAAGGTGGAGATGGTGAACGATGGGATGCAGGAATT
RNA-Seq data
ATGC Supported by RNA-Seq exonic block that spans over the splice site
atgs Truncated intron sequence
Each block is as long as the maximal overhang of any read spanning the junction.
The score is the number of alignments spanning the junction.
Found data for 4 RNA-Seq libraries.
Block sizes:
49 (upstream exon),
49 (downstream exon)
Score:
280GCGAGGAGCTGAGGGGGGGCCCTTCTGCTGCTGTTCTTGTTTCCCCGCTCTCCAAGATGTCGTCCCCGAGCAAGCGCCGCGAGATGGACCTTATGAAGCTgtgaggatgc ... ggcgtcgcagGATGATGAGCGACTACAAGGTGGAGATGGTGAACGATGGGATGCAGGAATTCTTCGTCGAATTCAAGGGGCCGGCCGAAA
Block sizes:
49 (upstream exon),
49 (downstream exon)
Score:
709GCGAGGAGCTGAGGGGGGGCCCTTCTGCTGCTGTTCTTGTTTCCCCGCTCTCCAAGATGTCGTCCCCGAGCAAGCGCCGCGAGATGGACCTTATGAAGCTgtgaggatgc ... ggcgtcgcagGATGATGAGCGACTACAAGGTGGAGATGGTGAACGATGGGATGCAGGAATTCTTCGTCGAATTCAAGGGGCCGGCCGAAA
Block sizes:
49 (upstream exon),
49 (downstream exon)
Score:
914GCGAGGAGCTGAGGGGGGGCCCTTCTGCTGCTGTTCTTGTTTCCCCGCTCTCCAAGATGTCGTCCCCGAGCAAGCGCCGCGAGATGGACCTTATGAAGCTgtgaggatgc ... ggcgtcgcagGATGATGAGCGACTACAAGGTGGAGATGGTGAACGATGGGATGCAGGAATTCTTCGTCGAATTCAAGGGGCCGGCCGAAA
Block sizes:
49 (upstream exon),
49 (downstream exon)
Score:
354GCGAGGAGCTGAGGGGGGGCCCTTCTGCTGCTGTTCTTGTTTCCCCGCTCTCCAAGATGTCGTCCCCGAGCAAGCGCCGCGAGATGGACCTTATGAAGCTgtgaggatgc ... ggcgtcgcagGATGATGAGCGACTACAAGGTGGAGATGGTGAACGATGGGATGCAGGAATTCTTCGTCGAATTCAAGGGGCCGGCCGAAA
atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.ttttttttttgatctggccattcttgccggctttcttggtttatcggcgtcgcagGATGATGAGCGACTACAAGGTGGAGATGGTGAACGATGGGATGCAGGAATTCTTCGTCGAATTCAAGGGGCCGGCCGAAA
ttttgat putative branch site (score: 354)
tttttgat TA-rich tract