Sequence
atgc intronic sequence ATGC exonic sequencegtgaattgcagctccagatctgcttgtctttccacagatctcaagtggttgttcgatttccttccagCTGCTCGTTCACCGTTGCCGCGAATGCGGCCAACCGCTACCCGAGAGCTACGAGCCGCCAGCGAACGAGCCGTGGACGACGGGGATCTGCGGCTGCGCCG
Basic information
species | Selaginella moellendorffii |
transcript | EFJ09771 |
intron # | 1 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: EFJ09771 (Selaginella moellendorffii), 3'ss of exon 1
lower sequence: LOC_Os10g41083.1 (Oryza sativa), 3'ss of exon 1
----------------------------------------------------------------gtga-attgcagctccagatctgcttgtctttccacagatctcaagtggttgttcgatttccttccagCTGCTCGTTCACCGTTGCCGCGAATGCGGCCAACCGCTACCCGAGAGCTACGAGCCGCCAGCGAACGAGCCGTGGACGACGGGGATCTGCGGCTGCGCCG
||| ||| | ||| ||||| | |||||| | | | ||||| | ||| |||| ||||| || | ||| || |||||||||||| |||| ||| ||||||||||||| || || |||||||| |||||||
gtctcgcgccatttccctcgcgcgcgatctcgcgtcgcactcccttcctttccgtggtgccctcgtgttgttgttggtccgatctgacttgttcgaggtggggggctgtgtggtttgcgtgcgtgcgtgtagCTGGAGCAGAGGAGGTGCTGCGAGTGCGGGCAGCAGCTGCCGGAGAGCTACGAGGCGCCGGCGGACGAGCCGTGGACCACCGGCATCTGCGGATGCGCCG
upper sequence: EFJ09771 (Selaginella moellendorffii), 3'ss of exon 1
lower sequence: GRMZM2G168257_T02 (Zea mays), 3'ss of exon 1
--------------------------gtgaattgcagctccagatctgcttgtctttc---cacagatctcaagtggttgttcgatttccttccagCTGCTCGTTCACC---GTTGCCGCGAATGCGGCCAACCGCTACCCGAGAGCTACGAGCCGCCAGCGAACGAGCCGTGGACGACGGGGATCTGCGGCTGCGCCG
| || | | | | || ||| ||||||| | | || | || |||| ||||| || | || |||| ||||| || || |||||||||||||||||||| || ||||||| ||||| || ||||||| ||| ||| |||
gtctcgctctctttcttcattagggtagggtatgtatccctcgtcctttgagtccgatggatctggatctca--tccctactcccctgcccgacagcagCTCGAAGGCCGGAGGTGTAGCGAGTGCGGTCAGGTCCTGCCCGAGAGCTACGAGCCGCCCGCCGACGAGCCCTGGACCACCGGGATCTTCGGATGCACCG
upper sequence: EFJ09771 (Selaginella moellendorffii), 3'ss of exon 1
lower sequence: GRMZM2G168257_T03 (Zea mays), 3'ss of exon 1
gtgaattgcagctccagatctgcttgtc---tttccacagatctcaagtggttgttcgatttccttccagCTGCTCGTTCACCG---TTGCCGCGAATGCGGCCAACCGCTACCCGAGAGCTACGAGCCGCCAGCGAACGAGCCGTGGACGACGGGGATCTGCGGCTGCGCCG
|| | | | | || ||| | ||||||| | | || | || |||| ||||| ||| || |||| ||||| || || |||||||||||||||||||| || ||||||| ||||| || ||||||| ||| |||
---gtatgtatccctcgtcctttgagtccgatggatctggatctca--tccctactcccctgcccgacagCAGCTCGAAGGCCGGAGGTGTAGCGAGTGCGGTCAGGTCCTGCCCGAGAGCTACGAGCCGCCCGCCGACGAGCCCTGGACCACCGGGATCTTCGGATGCA---
upper sequence: EFJ09771 (Selaginella moellendorffii), 3'ss of exon 1
lower sequence: GRMZM2G168257_T01 (Zea mays), 3'ss of exon 1
--------------------------gtgaattgcagctccagatctgcttgtctttcca---cagatctcaagtggttgttcgatttccttccagCTGCTCGTTCACCGT---TGCCGCGAATGCGGCCAACCGCTACCCGAGAGCTACGAGCCGCCAGCGAACGAGCCGTGGACGACGGGGATCTGCGGCTGCGCCG
| || | | | | || ||| ||||||| | | || | || |||| ||||| ||| || |||| ||||| || || |||||||||||||||||||| || ||||||| ||||| || ||||||| ||| |||
gtctcgctctctttcttcattagggtagggtatgtatccctcgtcctttgagtccgatggatctggatctca--tccctactcccctgcccgacagCAGCTCGAAGGCCGGAGGTGTAGCGAGTGCGGTCAGGTCCTGCCCGAGAGCTACGAGCCGCCCGCCGACGAGCCCTGGACCACCGGGATCTTCGGATGCA---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|169048631|gb|FE455800.1|FE455800EST: TGGAAGAGATCCTCGAGGGCGAGCTCAATCAGCCGGTTGTTGTCCCGCAG CTGCTCGTTCACCGTTGCCGCGAATGCGGCCAACCGCTACCCGAGAGCTAC
genomic: TGGAAGAGATCCTCGAGGGCGAGCTCAATCAGCCGGTTGTTGTCCCGCAGgtgaattgca ... ttccttccagCTGCTCGTTCACCGTTGCCGCGAATGCGGCCAACCGCTACCCGAGAGCTAC
EST:
gi|169048617|gb|FE455799.1|FE455799EST: AGGGCGAGCTCAATCAGCCGGTTGTTGTCCCGCAG CTGCTCGTTCACCGTTGCCGCGAATGCGGCCAACCGCTACCCGAGAGCTAC
genomic: AGGGCGAGCTCAATCAGCCGGTTGTTGTCCCGCAGgtgaattgca ... ttccttccagCTGCTCGTTCACCGTTGCCGCGAATGCGGCCAACCGCTACCCGAGAGCTAC
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:
9CAACCAGGCATCCCGCTACGTGAAGCTGGTCAAGGAGCAGGATGGACCCATGGAAGAGATCCTCGAGGGCGAGCTCAATCAGCCGGTTGTTGTCCCGCAGgtgaattgca ... ttccttccagCTGCTCGTTCACCGTTGCCGCGAATGCGGCCAACCGCTACCCGAGAGCTACGAGCCGCCAGCGAACGAGCCGTGGACGACGGGGATCTGCGGCTGCGCCG
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atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.tccagatctgcttgtctttccacagatctcaagtggttgttcgatttccttccagCTGCTCGTTCACCGTTGCCGCGAATGCGGCCAACCGCTACCCGAGAGCTACGAGCCGCCAGCGAACGAGCCGTGGACGACGGGGATCTGCGGCTGCGCCG
ttcgatttccttcc CT-rich tract