Sequence
atgc intronic sequence ATGC exonic sequencegttgtgcccattgctatcttgaaacaggatgtcttttatcaagattgtttttcagATATTGCATCTTCTTGGGGAAGAGGGACCAAAGACCTCCGATGCTAGCAAGTACATTCGCTACATCTACAATCGTGTAATATTGGAAAATGCTACTGTTC
Basic information
species | Selaginella moellendorffii |
transcript | EFJ15122 |
intron # | 10 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: EFJ15122 (Selaginella moellendorffii), 3'ss of exon 10
lower sequence: LOC_Os03g12590.1 (Oryza sativa), 3'ss of exon 10
----------------------------------------------gttgtgcccattgct--atcttgaaacaggatgtcttttatcaagattgtttttcagATATTGCATCTTCTTGGGGAAGAGGGACCAAAGACCTCCGATGCTAGCAAGTACATTCGCTACATCTACAATCGTGTAATATTGGAAAATGCTACTGTTC
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gttgagaatgttcataatcaatcttttccaattggtagttccttgcctagctcttgtttttcaacatttgaacagagaatcaatcctct---ctatttgttagATATTGCATCTTTTGGGAAATGAAGGACCAAGGACATCAGATCCAAGCAGATATATACGCTACATCTACAACCGTGTGATACTGGAAAATGCCACTGTCC
upper sequence: EFJ15122 (Selaginella moellendorffii), 3'ss of exon 10
lower sequence: GRMZM2G012501_T02 (Zea mays), 3'ss of exon 8
---------------------------------------------------gttgtgcccattgctatctt--gaaacaggatgtcttttatcaagattgtttttcagATATTGCATCTTCTTGGGGAAGAGGGACCAAAGACCTCCGATGCTAGCAAGTACATTCGCTACATCTACAATCGTGTAATATTGGAAAATGCTACTGTTC
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gatctaaaacatggagcaacttcaagtgcttgtattatctcaatagtgtttgttgaacc-actgtgatcgtaagaattgggatgttttttttc-------tttcgtagATTTTGCACTTTTTGGGAAATGAAGGACCAAGGACATCAGATCCAAGCAGGTACATTCGCTACATATACAACCGTGTGATATTGGAAAATGCCACTGTTCMapped 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|169055108|gb|FE461957.1|FE461957EST: ATCTTTGTGAGTTTATTGAAGACTGCGAGTTTACGTACCTTTCTACACAG ATATTGCATCTTCTTGGGGAAGAGGGACCAAAGACCTCCGATGCTAGCAAG
genomic: ATCTTTGTGAGTTTATTGAAGACTGCGAGTTTACGTACCTTTCTACACAGgttgtgccca ... tgtttttcagATATTGCATCTTCTTGGGGAAGAGGGACCAAAGACCTCCGATGCTAGCAAG
EST:
gi|169041828|gb|FE449347.1|FE449347EST: ATCTTTGTGAGTTTATTGAAGACTGCGAGTTTACGTACCTTTCTACACAG ATATTGCATCTTCTTGGGGA
genomic: ATCTTTGTGAGTTTATTGAAGACTGCGAGTTTACGTACCTTTCTACACAGgttgtgccca ... tgtttttcagATATTGCATCTTCTTGGGGA
EST:
gi|169112514|gb|FE510178.1|FE510178EST: ATCTTTGTGAGTTTATTGAAGACTGCGAGTTTACGTACCTTTCTACACAG ATATTGCATCTTCTTGGGGAAGAGGGACCAAAGACCTCCGATGCTAGCAAG
genomic: ATCTTTGTGAGTTTATTGAAGACTGCGAGTTTACGTACCTTTCTACACAGgttgtgccca ... tgtttttcagATATTGCATCTTCTTGGGGAAGAGGGACCAAAGACCTCCGATGCTAGCAAG
EST:
gi|169098061|gb|FE496895.1|FE496895EST: ATCTTTGTGAGTTTATTGAAGACTGCGAGTTTACGTACCTTTCTACACAG ATATTGCATCTTCTTGGGGAAGAGGGACCAAAGACCTCCGATGCTAGCAAG
genomic: ATCTTTGTGAGTTTATTGAAGACTGCGAGTTTACGTACCTTTCTACACAGgttgtgccca ... tgtttttcagATATTGCATCTTCTTGGGGAAGAGGGACCAAAGACCTCCGATGCTAGCAAG
EST:
gi|169029489|gb|FE438889.1|FE438889EST: ATCTTTGTGAGTTTATTGAAGACTGCGAGTTTACGTACCTTTCTACACAG ATATTGCATCTTCTTGGGGAAGAGGGACCAAAGACCTCCGATGCTAGCAAG
genomic: ATCTTTGTGAGTTTATTGAAGACTGCGAGTTTACGTACCTTTCTACACAGgttgtgccca ... tgtttttcagATATTGCATCTTCTTGGGGAAGAGGGACCAAAGACCTCCGATGCTAGCAAG
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 1 RNA-Seqlibrary.
Block sizes:
35 (upstream exon),
33 (downstream exon)
Score:
16CCTAATTCTGATCAACGAAATTCCAGACGCCAAAGAAAGCGGGCTCGTGCATCTTTGTGAGTTTATTGAAGACTGCGAGTTTACGTACCTTTCTACACAGgttgtgccca ... tgtttttcagATATTGCATCTTCTTGGGGAAGAGGGACCAAAGACCTCCGATGCTAGCAAGTACATTCGCTACATCTACAATCGTGTAATATTGGAAAATGCTACTGTTC
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atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.gttgtgcccattgctatcttgaaacaggatgtcttttatcaagattgtttttcagATATTGCATCTTCTTGGGGAAGAGGGACCAAAGACCTCCGATGCTAGCAAGTACATTCGCTACATCTACAATCGTGTAATATTGGAAAATGCTACTGTTC
ttgtttttc CT-rich tract
ttttatcaa TA-rich tract