Sequence
atgc intronic sequence ATGC exonic sequencegtgaggatgctggacctctcttggtctgttttccaattctgcctgaccgtgttctgcttgcttttttttttgatctggccattcttgccggctttcttggtttatcggcgtcgcagGATGATGAGCGACTACAAGGTCGAGATGGTGAACGATGGGATGCAGGAATTCTTCGTCGAATTCAAGGGGCCGGCCGAAA
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GRMZM2G053764_T04 (Zea mays), 3'ss of exon 1
lower sequence: GLYMA08G01940.3 (Glycine max), 3'ss of exon 1
----gtgaggatgctggacctctcttggtctgttttccaattctg----cctgaccgtgttctgcttgcttttttttttgatctggccattcttgccggctttcttggtttatcggcgtcgcagGATGATGAGCGACTACAAGGTCGAGATGGTGAACGATGGGATGCAGGAATTCTTCGTCGAATTCAAGGGGCCGGCCGAAA
|||| | || | | || | | ||||| | ||| | | || ||| | | ||||| || ||| ||| | | | ||| ||| | |||||||||||| || |||||||| |||| ||| |||||||| ||||| || ||||| || |||||| | || || || |
gtctgtgatcttttccgaattttttttttgtattttcgatttcagaaagtgttcttttgcataaattgttgtctttttccatttggggtgcgttg--gattgacatgg---atcagGTCATCAGGATGATGAGTGATTACAAGGTGGAGACGGTCAACGATGGCATGCAAGAGTTCTTTGTGGAATTCCACGGACCCAAAGACA
upper sequence: GRMZM2G053764_T04 (Zea mays), 3'ss of exon 1
lower sequence: GLYMA08G01940.2 (Glycine max), 3'ss of exon 1
gtgaggatgctggacctctcttggtctgttttccaattctg----cctgaccgtgttctgcttgcttttttttttgatctggccattcttgccggctttcttggtttatcggcgtcgcagGATGATGAGCGACTACAAGGTCGAGATGGTGAACGATGGGATGCAGGAATTCTTCGTCGAATTCAAGGGGCCGGCCGAAA
|||| | || | | || | | ||||| | ||| | | || ||| | | ||||| || ||| ||| | | | ||| ||| | |||||||||||| || |||||||| |||| ||| |||||||| ||||| || ||||| || |||||| | || || || |
gtgatcttttccgaattttttttttgtattttcgatttcagaaagtgttcttttgcataaattgttgtctttttccatttggggtgcgttg--gattgacatgg---atcaggtcatcagGATGATGAGTGATTACAAGGTGGAGACGGTCAACGATGGCATGCAAGAGTTCTTTGTGGAATTCCACGGACCCAAAGACA
upper sequence: GRMZM2G053764_T04 (Zea mays), 3'ss of exon 1
lower sequence: GLYMA09G39370.4 (Glycine max), 3'ss of exon 1
gtgaggatgctggacctctcttggtctgttttccaattctgcctgaccgtgttctgcttgcttttttttttgatctggccattcttgccggctttcttggtttatcggcgtcgcagGATGATGAGCGACTACAAGGTCGAGATGGTGAACGATGGGATGCAGGAATTCTTCGTCGAATTCAAGGGGCCGGCCGAAA
| | ||| ||| || || ||| | | | | |||| | | | | || |||| | | || | ||| ||| ||| || ||||||||||| || ||||||||||||||| | || ||||| ||||| ||||| | || ||||| | || || || |
--------gttaatcctttctctctcaattcatcaaagtt-tcaatcttttttctaatggggtctcttcctgattctgg-gtcctctttgtctt--ttgtttt-------ccgtagGATGATGAGTGATTACAAGGTCGAGATGATTAATGATGGAATGCAAGAATTTTATGTGCAATTCCATGGACCCAATGACA
upper sequence: GRMZM2G053764_T04 (Zea mays), 3'ss of exon 1
lower sequence: AT1G63800.1 (Arabidopsis thaliana), 3'ss of exon 1
gtgaggatgctggacctctcttggtctgttttccaattctgcctgaccgtg--ttctgcttgctttttt--ttttgatctggccattcttgccggctttcttggttta--tcggcgtcg-----cagGATGATGAGCGACTACAAGGTCGAGATGGTGAACGATGGGATGCAGGAATTCTTCGTCGAATTCAAGGGGCCGGCCGAAA
| | |||| | | || || || | | ||| || || | || |||| | | || | |||| ||| || ||| ||| | | | || ||||||||||| ||||||||||| |||||| | || ||||| ||||| || ||||| |||||||||| || || || |
-----gtaatttttttaatcttattatcttatcagtttattcttgattttgagctccgattttttttctaatgtttgtttggcgatttgattcgatttttttgtgatgatttgatgtgagagtttagGATGATGAGTGACTACAAGGTGGAGATGATCAATGATGGCATGCAAGAGTTCTTTGTCGAATTCAGTGGACCCAAAGACA
upper sequence: GRMZM2G053764_T04 (Zea mays), 3'ss of exon 1
lower sequence: PP1S37_166V6.1 (Physcomitrella patens), 3'ss of exon 1
gtgaggatgctggacc-tctcttggtctgttttccaattctgcctgaccgtgttctgcttgcttttttttttgatctggccattcttgccggctttcttggtttatcggcgtcgcagGATGATGAGCGACTACAAGGTCGAGATGGTGAACGATGGGATGCAGGAATTCTTCGTCGAATTCAAGGGGCCGGCCGAAA
||| | | || | ||||| ||| || | | | || | ||| | | | || || ||| | | | | ||||||||||| ||||||||||||||||||||||| ||||| ||| ||||||| || || || | || ||| || |
-----------ggattgtgttgtgattacttttcttgttcgaattggt-gcggtttggggaatcggcaagttgtt---gttgtatctgacga--ttcaagaatgtgtgattgggtagGATGATGAGTGACTACAAGGTCGAGATGGTGAATGATGGAATGAGCGAATTCTATGTGGAGTTTCATGGACCGCGTGAGA
upper sequence: GRMZM2G053764_T04 (Zea mays), 3'ss of exon 1
lower sequence: EFJ23672 (Selaginella moellendorffii), 3'ss of exon 1
---------------gtgaggatgctggacctctcttggtctgttttccaattctgcctgaccgtgttctgcttgcttttttttttgatctggccattc-ttgccggctttcttggtttatcgg----cgtcgcagGATGATGAGCGACTACAAGGTCGAGATGGTGAACGATGGGATGCAGGAATTCTTCGTCGAATTCAAGGGGCCGGCCGAAA
| || | |||| | || | | || ||| | | | ||||| || | |||| |||| |||| | | || | || | | | |||||||||||| ||||||||||| |||||||| |||||||||||| | || || || || ||| | || || || |
gtgagtctcgcctcctctcgaatttcaattccttcttcg-ctctccagtggctatgaaaaacctctctttcttcgctttcttcctc--tctgctaattcattgcttcttctttttgcttcccattcctctttccagGATGATGAGTGACTACAAGGTGGAGATGGTAAACGATGGGATGAACGAGTTTAATGTGGAGTTCCATGGACCTCGGGATA
upper sequence: GRMZM2G053764_T04 (Zea mays), 3'ss of exon 1
lower sequence: EFJ34378 (Selaginella moellendorffii), 3'ss of exon 1
gtgaggat-gctggacctc---tcttggtctgttttccaat-tctgcctgaccgtgttctgcttgcttttttttttgatctggccattc-ttgccggctttcttggtttatcgg----cgtcgcagGATGATGAGCGACTACAAGGTCGAGATGGTGAACGATGGGATGCAGGAATTCTTCGTCGAATTCAAGGGGCCGGCCGAAA
||||| | || ||| | | | || | | | || |||| | | | ||||| || | |||| |||| |||| | | || | || | | | |||||||||||| ||||||||||| |||||||| |||||||||||| | || || || || ||| | || || || |
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|5895766|gb|AW037012.1|AW037012EST: AAGATGTCGTCCCCGAGCAAGCGCCGCGAGATGGAGCTCATGAAGCT GATGATGAGCGACTACAAGGTGGAGATGGTGAACGATGGGATGCAGGAATT
genomic: AAGATGTCGTCCCCGAGCAAGCGCCGCGAGATGGACCTTATGAAGCTgtgaggatgc ... ggcgtcgcagGATGATGAGCGACTACAAGGTCGAGATGGTGAACGATGGGATGCAGGAATT
EST:
gi|5895785|gb|AW037031.1|AW037031EST: CCCCGAGCAAGCGCCGCGAGATGGACCTCATGAAGCT GATGATGAGCGACTACAAGGTGGAGATGGTGAACGATGGGATGCAGGAATT
genomic: CCCCGAGCAAGCGCCGCGAGATGGACCTTATGAAGCTgtgaggatgc ... ggcgtcgcagGATGATGAGCGACTACAAGGTCGAGATGGTGAACGATGGGATGCAGGAATT
EST:
gi|60355446|gb|DN222419.1|DN222419EST: TCCAAGATGTCGTCCCCGAGCAAGCGCCGCGAGATGGACCTTATGAAGCT GATGATGAGCGACTACAAGGTCGAGATGGTGAACGATGGGATGCAGGAATT
genomic: TCCAAGATGTCGTCCCCGAGCAAGCGCCGCGAGATGGACCTTATGAAGCTgtgaggatgc ... ggcgtcgcagGATGATGAGCGACTACAAGGTCGAGATGGTGAACGATGGGATGCAGGAATT
EST:
gi|71328419|gb|DR800850.1|DR800850EST: TCCAAGATGTCGTCCCCGAGCAAGCGCCGCGAGATGGACCTTATGAAGCT GATGATGAGCGACTACAAGGTCGAGATGGTGAACGATGGGATGCAGGAATT
genomic: TCCAAGATGTCGTCCCCGAGCAAGCGCCGCGAGATGGACCTTATGAAGCTgtgaggatgc ... ggcgtcgcagGATGATGAGCGACTACAAGGTCGAGATGGTGAACGATGGGATGCAGGAATT
EST:
gi|5895786|gb|AW037032.1|AW037032EST: TCCAAGATGTCGTCCCCGAGCAAGCGCCGCGAGATGGACCTCATGAAGCT GATGATGAGCGACTACAAGGTGGAGATGGTGAACGATGGGATGCAGGAATT
genomic: TCCAAGATGTCGTCCCCGAGCAAGCGCCGCGAGATGGACCTTATGAAGCTgtgaggatgc ... ggcgtcgcagGATGATGAGCGACTACAAGGTCGAGATGGTGAACGATGGGATGCAGGAATT
EST:
gi|5917370|gb|AW054161.1|AW054161EST: AAGCGCCGCGAGATGGACCTCATGAAGCT GATGATGAGCGACTACAAGGTGGAGATGGTGAACGATGGGATGCAGGAATT
genomic: AAGCGCCGCGAGATGGACCTTATGAAGCTgtgaggatgc ... ggcgtcgcagGATGATGAGCGACTACAAGGTCGAGATGGTGAACGATGGGATGCAGGAATT
EST:
gi|22715330|gb|BU197707.1|BU197707EST: GTCCCCGAGCAAGCGCCGCGAGATGGACCTCATGAAGCT GATGATGAGCGACTACAAGGTGGAGATGGTGAACGATGGGATGCAGGAATT
genomic: GTCCCCGAGCAAGCGCCGCGAGATGGACCTTATGAAGCTgtgaggatgc ... ggcgtcgcagGATGATGAGCGACTACAAGGTCGAGATGGTGAACGATGGGATGCAGGAATT
EST:
gi|211363205|gb|FL271919.1|FL271919EST: TCCAAGATGTCGTCCCCGAGCAAGCGCCGCGAGATGGACCTTATGAAGCT GATGATGAGCGACTACAAGGTCGAGATGGTGAACGATGGGATGCAGGAATT
genomic: TCCAAGATGTCGTCCCCGAGCAAGCGCCGCGAGATGGACCTTATGAAGCTgtgaggatgc ... ggcgtcgcagGATGATGAGCGACTACAAGGTCGAGATGGTGAACGATGGGATGCAGGAATT
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),
47 (downstream exon)
Score:
15AGCTGAGGGGGGGGGGGGGCCCTTCTGCTGCTGTTCTTGTTTCCCCGCTCTCCAAGATGTCGTCCCCGAGCAAGCGCCGCGAGATGGACCTTATGAAGCTgtgaggatgc ... ggcgtcgcagGATGATGAGCGACTACAAGGTCGAGATGGTGAACGATGGGATGCAGGAATTCTTCGTCGAATTCAAGGGGCCGGCCGAAA
Block sizes:
48 (upstream exon),
49 (downstream exon)
Score:
17AGCTGAGGGGGGGGGGGGGCCCTTCTGCTGCTGTTCTTGTTTCCCCGCTCTCCAAGATGTCGTCCCCGAGCAAGCGCCGCGAGATGGACCTTATGAAGCTgtgaggatgc ... ggcgtcgcagGATGATGAGCGACTACAAGGTCGAGATGGTGAACGATGGGATGCAGGAATTCTTCGTCGAATTCAAGGGGCCGGCCGAAA
Block sizes:
48 (upstream exon),
49 (downstream exon)
Score:
39AGCTGAGGGGGGGGGGGGGCCCTTCTGCTGCTGTTCTTGTTTCCCCGCTCTCCAAGATGTCGTCCCCGAGCAAGCGCCGCGAGATGGACCTTATGAAGCTgtgaggatgc ... ggcgtcgcagGATGATGAGCGACTACAAGGTCGAGATGGTGAACGATGGGATGCAGGAATTCTTCGTCGAATTCAAGGGGCCGGCCGAAA
Block sizes:
49 (upstream exon),
49 (downstream exon)
Score:
31AGCTGAGGGGGGGGGGGGGCCCTTCTGCTGCTGTTCTTGTTTCCCCGCTCTCCAAGATGTCGTCCCCGAGCAAGCGCCGCGAGATGGACCTTATGAAGCTgtgaggatgc ... ggcgtcgcagGATGATGAGCGACTACAAGGTCGAGATGGTGAACGATGGGATGCAGGAATTCTTCGTCGAATTCAAGGGGCCGGCCGAAA
atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.ttttttttttgatctggccattcttgccggctttcttggtttatcggcgtcgcagGATGATGAGCGACTACAAGGTCGAGATGGTGAACGATGGGATGCAGGAATTCTTCGTCGAATTCAAGGGGCCGGCCGAAA
ttttgat putative branch site (score: 31)
tttttgat TA-rich tract