Sequence
atgc intronic sequence ATGC exonic sequencegtaggtgacaacttgagaattaaattatgtgcacaagagccaataatcataagttattctgatttaacatgacattttttcagaataagttcacacgtcaccagtttggcaacacgttagaatgttgacaggtggtccctagctggcgttatcttatggttatgtgttgtcatttcagGTCCTCCACCATACTGTTTCCCTGGTTGCAATAGCTTACACAATGTTGTCTGGGGAAGGGCAGTTTTACACATACATGGTTCTCATTTCAGAGACAACCA
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GRMZM2G016184_T02 (Zea mays), 3'ss of exon 5
lower sequence: LOC_Os03g46410.1 (Oryza sativa), 3'ss of exon 5
gtaggtg---acaacttgagaat-taaattat-gtgcacaagagccaataatcataagttattctgatttaacatgacattttttcagaataagttcacacgtcaccagtttggcaacacgttagaatgttgacaggtggtccctagctggcgttatcttatggttatgtgttgtcatttcagGTCCTCCACCATACTGTTTCCCTGGTTGCAATAGCTTACACAATGTTGTCTGGGGAAGGGCAGTTTTACACATACATGGTTCTCATTTCAGAGACAACCA
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gtatgtgttcagcatttgtctatatatactattataaattaagttaattgctaatgaattaggtttagttaaattta-gtttggtttcaataagctcatgcgata--attttggcagcatgttagacagtt---aggtagtgcctggttagcaatatcttattgttgtatattgtt-ttgcagATCGTCCATCATACTCTTTCTCTAGTTGCAATAGCTTACACAATGTTGTCAGGGGAGGGTCAGTTCTACACATACATGGTTCTTATTTCAGAAACAACCA
upper sequence: GRMZM2G016184_T02 (Zea mays), 3'ss of exon 5
lower sequence: Vv12s0028g01000.t01 (Vitis vinifera), 3'ss of exon 4
gtaggtgacaacttgagaattaaattatgtgcacaagagccaataatcataagttattctgatttaacatgacattttttcagaataagttcacacgtcaccagtttggcaacacgttagaatgttgacaggtggtccctagctggcgttatcttatggttatgtgttgtcatttcagGTCCTCCACCATACTGTTTCCCTGGTTGCAATAGCTTACACAATGTTGTCTGGGGAAGGGCAGTTTTACACATACATGGTTCTCATTTCAGAGACAACCA
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-------------------------------------------------------------------------gtggtggaggtgggggtgggaggaaagttgatgttttaacttgtagaagtaaaaacttgaaat---tggttgg-gaaatcaaggcactg-acattgtcatttcagGTGGTTCATCATCTTTTATCTATAGCTGCAGTGGCATATGCAATGTTGACTGGGGAAGGGCAACTTTACACCTACATGGTTCTTATCTCTGAGACAACAAMapped 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|86474267|gb|DY240637.1|DY240637EST: ATCTTGCAATGATCTTCTGGCTGTATCCTTCCCTTGGTGGAATGGAATAT GTCCTCCACCATACTGTTTCCCTGGTTGCAATAGCTTACACAATGTTGTCT
genomic: ATCTTGCAATGATCTTCTGGCTGTATCCTTCCCTTGGTGGAATGGAATATgtaggtgaca ... gtcatttcagGTCCTCCACCATACTGTTTCCCTGGTTGCAATAGCTTACACAATGTTGTCT
EST:
gi|60400317|gb|DN233124.1|DN233124EST: ATCTTGCAATGATCTTCTGGCTGTATCCTTCCCTTGGTGGAATGGAATAT GTCCTCCACCATACTGTTTCCCTGGTTGCAATAGCTTACACAATGTTGTCT
genomic: ATCTTGCAATGATCTTCTGGCTGTATCCTTCCCTTGGTGGAATGGAATATgtaggtgaca ... gtcatttcagGTCCTCCACCATACTGTTTCCCTGGTTGCAATAGCTTACACAATGTTGTCT
EST:
gi|211286255|gb|FL063748.1|FL063748EST: ATCTTGCAATGATCTTCTGGCTGTATCCTTCCCTTGGTGGAATGGAATAT GTCCTCCACCATACTGTTTCCCTGGTTGCAATAGCTTACACAATGTTGTCT
genomic: ATCTTGCAATGATCTTCTGGCTGTATCCTTCCCTTGGTGGAATGGAATATgtaggtgaca ... gtcatttcagGTCCTCCACCATACTGTTTCCCTGGTTGCAATAGCTTACACAATGTTGTCT
EST:
gi|67030326|gb|CO459075.1|CO459075EST: ATCTTGCAATGATCTTCTGGCTGTATCCTTCCCTTGGTGGAATGGAATAT GTCCTCCACCATACTGTTTCCCTGGTTGCAATAGCTTACACAATGTTGTCT
genomic: ATCTTGCAATGATCTTCTGGCTGTATCCTTCCCTTGGTGGAATGGAATATgtaggtgaca ... gtcatttcagGTCCTCCACCATACTGTTTCCCTGGTTGCAATAGCTTACACAATGTTGTCT
EST:
gi|211154538|gb|FL360790.1|FL360790EST: ATCTTGCAATGATCTTCTGGCTGTATCCTTCCCTTGGTGGAATGGAATAT GTCCTCCACCATACTGTTTCCCTGGTTGCAATAGCTTACACAATGTTGTCT
genomic: ATCTTGCAATGATCTTCTGGCTGTATCCTTCCCTTGGTGGAATGGAATATgtaggtgaca ... gtcatttcagGTCCTCCACCATACTGTTTCCCTGGTTGCAATAGCTTACACAATGTTGTCT
EST:
gi|83278187|gb|DV942195.1|DV942195EST: ATCTTGCAATGATCTTCTGGCTGTATCCTTCCCTTGGTGGAATGGAATAT GTCCTCCACCATACTGTTTCCCTGGTTGCAATAGCTTACACAATGTTGTCT
genomic: ATCTTGCAATGATCTTCTGGCTGTATCCTTCCCTTGGTGGAATGGAATATgtaggtgaca ... gtcatttcagGTCCTCCACCATACTGTTTCCCTGGTTGCAATAGCTTACACAATGTTGTCT
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:
45 (upstream exon),
46 (downstream exon)
Score:
93GTTTCTGTCGGCTACTTCATCACTGATCTTGCAATGATCTTCTGGCTGTATCCTTCCCTTGGTGGAATGGAATATgtaggtgaca ... gtcatttcagGTCCTCCACCATACTGTTTCCCTGGTTGCAATAGCTTACACAATGTTGTCTGGGGAAGGGCAGTTTTACACATACATGGTTCTCATTTCAGAGACAACCA
Block sizes:
48 (upstream exon),
49 (downstream exon)
Score:
65GTTTCTGTCGGCTACTTCATCACTGATCTTGCAATGATCTTCTGGCTGTATCCTTCCCTTGGTGGAATGGAATATgtaggtgaca ... gtcatttcagGTCCTCCACCATACTGTTTCCCTGGTTGCAATAGCTTACACAATGTTGTCTGGGGAAGGGCAGTTTTACACATACATGGTTCTCATTTCAGAGACAACCA
Block sizes:
48 (upstream exon),
43 (downstream exon)
Score:
61GTTTCTGTCGGCTACTTCATCACTGATCTTGCAATGATCTTCTGGCTGTATCCTTCCCTTGGTGGAATGGAATATgtaggtgaca ... gtcatttcagGTCCTCCACCATACTGTTTCCCTGGTTGCAATAGCTTACACAATGTTGTCTGGGGAAGGGCAGTTTTACACATACATGGTTCTCATTTCAGAGACAACCA
Block sizes:
48 (upstream exon),
49 (downstream exon)
Score:
177GTTTCTGTCGGCTACTTCATCACTGATCTTGCAATGATCTTCTGGCTGTATCCTTCCCTTGGTGGAATGGAATATgtaggtgaca ... gtcatttcagGTCCTCCACCATACTGTTTCCCTGGTTGCAATAGCTTACACAATGTTGTCTGGGGAAGGGCAGTTTTACACATACATGGTTCTCATTTCAGAGACAACCA
atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.gttgacaggtggtccctagctggcgttatcttatggttatgtgttgtcatttcagGTCCTCCACCATACTGTTTCCCTGGTTGCAATAGCTTACACAATGTTGTCTGGGGAAGGGCAGTTTTACACATACATGGTTCTCATTTCAGAGACAACCA
tgttgac putative branch site (score: 177)
tcatttc putative PPT
ttatcttat TA-rich tract