Sequence
atgc intronic sequence ATGC exonic sequenceGCACGAGGGTGTCGACATCGTCGTAATCAGGGAGAACACCGAGGGCGAGTACTCGGGGCTCGAGCACGAGGTCGTACCCGGGGTCGTTGAGAGCCTCAAGgtactacggagtgtcggttggggtcggctgcgtttcatgtttattatgatttttccgatatgttatactccctccttttatataagtatatgacaccgtt...
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GRMZM2G025366_T02 (Zea mays), 5'ss of exon 1
lower sequence: LOC_Os04g40310.2 (Oryza sativa), 5'ss of exon 1
GCACGAGGGTGTCGACATCGTCGTAATCAGGGAGAACACCGAGGGCGAGTACTCGGGGCTCGAGCACGAGGTCGTACCCGGGGTCGTTGAGAGCCTCAAGgtactacggagtgtcggttggggtcggctgcgtttcatgtttattatgatttttccgatatgttatactccctccttttatataagtatatgacaccgtt---
|||| ||| |||||||||||||| |||||||||||||||||||| ||||||||||||||||||||||||||||| ||||| ||||| |||||||||||||||| | | ||| || | ||| | | | | || || || | | || | | | || | | | | |
GCACCAGGACGTCGACATCGTCGTCATCAGGGAGAACACCGAGGGGGAGTACTCGGGGCTCGAGCACGAGGTCGTGCCCGGCGTCGTCGAGAGCCTCAAGgtacgggccaatctcgcgtgacgcgcgctttgctctgt---tgttgtgtgttggttggagaatcgccacccgtgcatcgattttgacgtctaatgtgttcctt
upper sequence: GRMZM2G025366_T02 (Zea mays), 5'ss of exon 1
lower sequence: GLYMA11G08920.1 (Glycine max), 5'ss of exon 1
GCACGAGGGTGTCGACATCGTCGTAATCAGGGAGAACACCGAGGGCGAGTACTCGGGGCTCGAGCACGAGGTCGTACCCGGGGTCGTTGAGAGCCTCAAGgtactacggagtgtcggttggggtcggctgcgtttcatgtttattatgatttttccgatatgttatactccctcctttta-tataagtatatgacaccgtt---
||||| || ||||||||||| ||||||||||||||||||||||||||||| || ||||| ||||||||||| ||||| || || || |||||||||||||| | | || | ||| | | ||| | | | || | ||| ||| | | | ||| || || | || | |
CCACGACAACGTTGACATCGTCGTCATCAGGGAGAACACCGAGGGCGAGTACTCCGGCCTCGAACACGAGGTCGTCCCCGGCGTGGTCGAAAGCCTCAAGgtactc---actcacgttcacggtttctttctgctcaagctaaataatagcagctgaata-attaggttttatgatcttaataaaatgaaattaagagaatgaa
upper sequence: GRMZM2G025366_T02 (Zea mays), 5'ss of exon 1
lower sequence: GLYMA02G04780.1 (Glycine max), 5'ss of exon 1
GCACGAGGGTGTCGACATCGTCGTAATCAGGGAGAACACCGAGGGCGAGTACTCGGGGCTCGAGCACGAGGTCGTACCCGGGGTCGTTGAGAGCCTCAAGgtactacggagtgtcggttggggtcggctgcgtttcatgtttattatgatttttccgatatgttatactccctccttttatataagtatatgacaccgtt--
|| || ||| || || || || ||||||||||||||||| ||||||||||| || ||||| ||||||||||| ||||| || ||||| ||||| ||||| | | | | || | ||| | | | || | | || || | | | | || | | ||
CCATGATAATGTTGATATTGTTGTCATCAGGGAGAACACCGAAGGCGAGTACTCCGGCCTCGAACACGAGGTCGTTCCCGGCGTTGTTGAAAGCCTTAAGgtgtgctcttcctctcctctcgctttctcacactttttacatat-agggtcttgctaa-gggtactagttaacgaactaaaaagagaaatcatttactttga
upper sequence: GRMZM2G025366_T02 (Zea mays), 5'ss of exon 1
lower sequence: GLYMA16G22640.1 (Glycine max), 5'ss of exon 1
GCACGAGGGTGTCGACATCGTCGTAATCAGGGAGAACACCGAGGGCGAGTACTCGGGGCTCGAGCACGAGGTCGTACCCGGGGTCGTTGAGAGCCTCAAGgtactacggagtgtcggttggggtcggctgcgtttcatgtttattat--gatttttccgatatgttatactccctccttttatataagtatatgacaccgtt
|| || ||| || ||||| || ||||||||||||||||| ||||| ||||| || ||||| ||||||||||| ||||| || ||||| ||||| ||||| | | | || || | | |||||| |||| | |||||| | || | || | ||| || | ||| |
CCATGATAATGTGGATATCGTTGTCATCAGGGAGAACACCGAAGGCGAATACTCTGGCCTCGAACACGAGGTCGTTCCCGGCGTTGTTGAAAGCCTTAAGgtgcgttcttccactcccctcgctttctcacgctttttatatattatcaaatttgttttctatgtttttctat-tatttatttatttgtttttgaaattag-
upper sequence: GRMZM2G025366_T02 (Zea mays), 5'ss of exon 1
lower sequence: AT4G35260.1 (Arabidopsis thaliana), 5'ss of exon 1
GCACGAGGGTGTCGACATCGTCGTAATCAGGGAGAACACCGAGGGCGAGTACTCGGGGCTCGAGCACGAGGTCGTACCCGGGGTCGTTGAGAGCCTCAAGgt---actacggagtgtcggt--tggggtcggctgcgtttcatgtttattatgatttttccgat---atgttatactccctccttttatataagtata-tgacaccgtt-----------
|| ||| ||| |||||||| || ||||| |||||||| || || |||||| ||||||| ||||||||||| || || || ||||||||||| || ||||| | | | || | | | | | | || | | | | ||| | | | || | | || | | || | | | | | | ||| | ||
CCATGAGAATGTTGACATCGTTGTCATCAGAGAGAACACTGAAGGTGAGTACGCGGGGCTTGAGCACGAGGTTGTTCCTGGTGTCGTTGAGAGTCTGAAGgtgagaattccgatttctgctcctcgttttggattcaatctgtatttgtggaatcatcttcgtttgcaagtggtctttgtatgttatgtgtgattgttctgatcctatttctatgcttag
upper sequence: GRMZM2G025366_T02 (Zea mays), 5'ss of exon 1
lower sequence: Vv03s0038g03120.t01 (Vitis vinifera), 5'ss of exon 1
GCACGAGGGTGTCGACATCGTCGTAATCAGGGAGAACACCGAGGGCGAGTACTCGGGGCTCGAGCACGAGGTCGTACCCGGGGTCGTTGAGAGCCTCAAGgtacta-cggagtgtcggttggggtcggctgcgtttcatgttt-attatgatttttccgatatgttatactccctccttttatataagtatatgacaccgtt
|||| | | ||| || || || || | ||||||||||| |||||||||||| | ||||| |||||||||||||| ||||| || || || ||||| |||||| | | || | | | | ||| | || ||| | | |||| | | |||||| || ||| ||
GCACAATGATGTTGATATTGTTGTGGTGAGGGAGAACACGGAGGGCGAGTACGCTGGGCTTGAGCACGAGGTCGTTCCCGGCGTGGTCGAAAGCCTTAAGgtaacgtctgtttggatgcctagagaactggtggaacataaaagaaaatagacttttggttctgttttggtaagaaaaaaaatataaa-atgcgaccccta-
upper sequence: GRMZM2G025366_T02 (Zea mays), 5'ss of exon 1
lower sequence: Vv04s0210g00180.t01 (Vitis vinifera), 5'ss of exon 1
GCACGAGGGTGTCGACATCGTCGTAATCAGGGAGAACACCGAGGGCGAGTACTCGGGGCTCGAGCACGAGGTCGTACCCGGGGTCGTTGAGAGCCTCAAGgtactacggagtgtcggttggggtcggctgcgtttcatgtttattatgat--ttttccgata-tgttatactccctccttttatat---aagtatatgacaccgtt----
|||| || ||| || || ||||| || ||||||| || || |||||||||||||||||||||||||||||||| ||||| ||||| || ||||| ||||| | | || | | || | ||| ||||| || ||| || || |||| | | | || | || | || | | ||
GCACCAGAATGTGGATATAGTCGTGATTCGGGAGAATACGGAAGGCGAGTACTCGGGGCTCGAGCACGAGGTCGTTCCCGGTGTCGTGGAAAGCCTTAAGgt----------tttgatttgttattaccttgtctgatggttattttggccgtttcccaatgctgttcaattttccttttctcgattttagaggtagaggatcatttggt
upper sequence: GRMZM2G025366_T02 (Zea mays), 5'ss of exon 1
lower sequence: PP1S152_81V6.1 (Physcomitrella patens), 5'ss of exon 1
GCACGAGGGTGTCGACATCGTCGTAATCAGGGAGAACACCGAGGGCGAGTACTCGGGGCTCGAGCACGAGGTCGTACCCGGGGTCGTTGAGAGCCTCAAGgtactacggagtgtcggttggggtcggctgcgtttcatgtttattatgatttttccgatatgttatactccctccttttatataagtatatgacaccgtt--------------
||||| |||| ||||||| ||||| |||||||||| ||||| |||||||| || || || ||||||||||| || |||||||| |||||||| || |||| | | || |||| ||| | || ||||| || | || | || | | || | | ||| || |||| | |
CCACGACAATGTCAACATCGTGGTAATTCGGGAGAACACAGAGGGGGAGTACTCTGGTCTTGAACACGAGGTCGTCCCTGGGGTCGTGGAGAGCCTGAAAgtac----------ctatctcattcacctgcttttgaa--ttgatatgagttattt-atttatttatttatttatttatttgtaaacatg-gacaatgatgcatctgtgaatcg
upper sequence: GRMZM2G025366_T02 (Zea mays), 5'ss of exon 1
lower sequence: PP1S101_151V6.1 (Physcomitrella patens), 5'ss of exon 1
GCACGAGGGTGTCGACATCGTCGTAATCAGGGAGAACACCGAGGGCGAGTACTCGGGGCTCGAGCACGAGGTCGTACCCGGGGTCGTTGAGAGCCTCAAGgtac----tacggagtgtcggttggggt-cggctgcgtttcatgtttattatgatttttccgatatgttatactccctccttttatataagtatatgacaccgtt
|| || |||| |||| || || || ||||||| ||||| || ||||| || || || |||||||||||||| ||||||||||| |||||||| ||||||| | || | | || | | ||||| | | || |||| || | | | |||| | | | | ||
CCATGACAATGTCAACATTGTGGTTATTCGGGAGAATACCGAAGGGGAGTATTCTGGTCTTGAGCACGAGGTCGTCCCCGGGGTCGTCGAGAGCCTTAAGgtacatatttcgttttctgacctgaaaaataacactactctatgttgtgcctagtgattgtaatattttctgtccaagcatttttttcacgcctttgttt-----
upper sequence: GRMZM2G025366_T02 (Zea mays), 5'ss of exon 1
lower sequence: PP1S212_85V6.2 (Physcomitrella patens), 5'ss of exon 2
GCACGAGGGTGTCGACATCGTCGTAATCAGGGAGAACACCGAGGGCGAGTACTCGGGGCTCGAGCACGAGGTCGTACCCGGGGTCGTTGAGAGCCTCAAGgtactacggagtgtcggttggggtcggctgcgtttcatgtttattatgatttttccgatatgttatactccctccttttatataagtatatgacaccgtt------
||||| |||| |||| || || || | |||||||| || || |||||||| || || |||||||||||||| |||||||| || ||||||||||||||| | | | | | | || | | || | | | || | || || | | || || || |||| ||| ||
CCACGATAATGTCAACATTGTGGTTATTCGAGAGAACACTGAAGGAGAGTACTCTGGTCTTGAGCACGAGGTCGTCCCCGGGGTTGTCGAGAGCCTCAAGgtaatt---atcttattcttgaacc--ctacaagtaatacacaatttaatgcgtatgaactgcggcaaatcttctttactcatttcgttatg-cacttttctgcat
upper sequence: GRMZM2G025366_T02 (Zea mays), 5'ss of exon 1
lower sequence: EFJ13705 (Selaginella moellendorffii), 5'ss of exon 1
GCACGAGGGTGTCGACATCGTCGTAATCAGGGAGAACACCGAGGGCGAGTACTCGGGGCTCGAGCACGAGGTCGTACCCGGGGTCGTTGAGAGCCTCAAGgtactacggagtgt-cggttggggtcggctgcgtttcatgtttattatgatttttccgatatgttatactccctccttttatataagtatatgacaccgtt
|| || ||| |||| || || ||| |||||||||||||||| |||||| | || || |||||||||||||| || || || || ||| ||||||||||| | | | | | | | ||| | | || | || ||| |
CCATGACAACGTCAACATTGTTGTGATCCGGGAGAACACCGAGGGGGAGTACGCCGGCCTGGAGCACGAGGTCGTCCCGGGTGTTGTCGAGTCTCTCAAGgtactccaatttcttctcctctgctttgctcgg--ccgctccagctacgtttcttcttgcgcaccag----------------------------------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|149089013|gb|EE178164.2|EE178164EST: ACTCGGGGCTCGAGCACGAGGTCGTACCCGGGGTCGTTGAGAGCCTCAAG -T--T-------TT--GCTCTGAGAGGATTGCCAAATATGCATTCGAGTAT
genomic: ACTCGGGGCTCGAGCACGAGGTCGTACCCGGGGTCGTTGAGAGCCTCAAGgtactacgga ... gatttcctagGTGATCACAAAGTTTTGCTCTGAGAGGATTGCCAAATATGCATTCGAGTAT
EST:
gi|149105682|gb|EE291240.2|EE291240EST: ACTCGGGGCTCGAGCACGAGGTCGTACCCGGGGTCGTTGAGAGCCTCAAG GTGATCACAAAGTTTTGCTCTGAGAGGATTGCCAAATATGCATTCGAGTAT
genomic: ACTCGGGGCTCGAGCACGAGGTCGTACCCGGGGTCGTTGAGAGCCTCAAGgtactacgga ... gatttcctagGTGATCACAAAGTTTTGCTCTGAGAGGATTGCCAAATATGCATTCGAGTAT
EST:
gi|211060059|gb|FL391389.1|FL391389EST: ACTCGGGGCTCGAGCACGAGGTCGTACCCGGGGTCGTTGAGAGCCTCAAG GTGATCACAAAGTTTTGCTCTGAGAGGATTGCCAAATATGCATTCGAGTAT
genomic: ACTCGGGGCTCGAGCACGAGGTCGTACCCGGGGTCGTTGAGAGCCTCAAGgtactacgga ... gatttcctagGTGATCACAAAGTTTTGCTCTGAGAGGATTGCCAAATATGCATTCGAGTAT
EST:
gi|149107868|gb|EE292228.2|EE292228EST: ACTCGGGGCTCGAGCACGAGGTCGTACCCGGGGTCGTTGAGAGCCTCAAG GTGATCACAAAGTTTTGCTC
genomic: ACTCGGGGCTCGAGCACGAGGTCGTACCCGGGGTCGTTGAGAGCCTCAAGgtactacgga ... gatttcctagGTGATCACAAAGTTTTGCTC
EST:
gi|148959185|gb|EC905302.2|EC905302EST: ACTCGGGGCTCGAGCACGAGGTCGTACCCGGGGTCGTTGAGAGCCTCAAG GTGATCACAAAGTTTTGCTCTGAGAGGATTGCCAAATATGCATTCGAGTAT
genomic: ACTCGGGGCTCGAGCACGAGGTCGTACCCGGGGTCGTTGAGAGCCTCAAGgtactacgga ... gatttcctagGTGATCACAAAGTTTTGCTCTGAGAGGATTGCCAAATATGCATTCGAGTAT
EST:
gi|56691635|gb|CX129538.1|CX129538EST: ACCCGGGGTCGTTGAGAGCCTCAAG GTGGTCACAAAGTTTTGCTCTGAGAGGATTGCCAAATATGCATTCGAGTAT
genomic: ACCCGGGGTCGTTGAGAGCCTCAAGgtactacgga ... gatttcctagGTGATCACAAAGTTTTGCTCTGAGAGGATTGCCAAATATGCATTCGAGTAT
EST:
gi|76285693|gb|DV025261.1|DV025261EST: ACTCGGGGCTCGAGCACGAGGTCGTACCCGGGGTCGTTGAGAGCCTCAAG GTGATCACAAAGTTTTGCTCTGAGAGGATTGCCAAATATGCATTCGAGTAT
genomic: ACTCGGGGCTCGAGCACGAGGTCGTACCCGGGGTCGTTGAGAGCCTCAAGgtactacgga ... gatttcctagGTGATCACAAAGTTTTGCTCTGAGAGGATTGCCAAATATGCATTCGAGTAT
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:
48 (upstream exon),
47 (downstream exon)
Score:
105GCACGAGGGTGTCGACATCGTCGTAATCAGGGAGAACACCGAGGGCGAGTACTCGGGGCTCGAGCACGAGGTCGTACCCGGGGTCGTTGAGAGCCTCAAGgtactacgga ... gatttcctagGTGATCACAAAGTTTTGCTCTGAGAGGATTGCCAAATATGCATTCGAGTATGCTTACCTTAACAACCGAAAGAAAGTCACTGCAGTGCATAAAGCAAACA
Block sizes:
49 (upstream exon),
48 (downstream exon)
Score:
155GCACGAGGGTGTCGACATCGTCGTAATCAGGGAGAACACCGAGGGCGAGTACTCGGGGCTCGAGCACGAGGTCGTACCCGGGGTCGTTGAGAGCCTCAAGgtactacgga ... gatttcctagGTGATCACAAAGTTTTGCTCTGAGAGGATTGCCAAATATGCATTCGAGTATGCTTACCTTAACAACCGAAAGAAAGTCACTGCAGTGCATAAAGCAAACA
Block sizes:
49 (upstream exon),
49 (downstream exon)
Score:
239GCACGAGGGTGTCGACATCGTCGTAATCAGGGAGAACACCGAGGGCGAGTACTCGGGGCTCGAGCACGAGGTCGTACCCGGGGTCGTTGAGAGCCTCAAGgtactacgga ... gatttcctagGTGATCACAAAGTTTTGCTCTGAGAGGATTGCCAAATATGCATTCGAGTATGCTTACCTTAACAACCGAAAGAAAGTCACTGCAGTGCATAAAGCAAACA
Block sizes:
49 (upstream exon),
49 (downstream exon)
Score:
361GCACGAGGGTGTCGACATCGTCGTAATCAGGGAGAACACCGAGGGCGAGTACTCGGGGCTCGAGCACGAGGTCGTACCCGGGGTCGTTGAGAGCCTCAAGgtactacgga ... gatttcctagGTGATCACAAAGTTTTGCTCTGAGAGGATTGCCAAATATGCATTCGAGTATGCTTACCTTAACAACCGAAAGAAAGTCACTGCAGTGCATAAAGCAAACA