Sequence
atgc intronic sequence ATGC exonic sequencegtaagtgaactttccttgaaagcctaacaaaggttgacggtgatgttccatcgtttacagGTGAGGATCGCTCGTATTTTCAACACATATGGTCCTAGAATGTGCCTGGACGATGGCCGAGTTGTCAGCAACTTCGTGGCCCAG
Basic information
species | Selaginella moellendorffii |
transcript | EFJ23020 |
intron # | 3 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: EFJ23020 (Selaginella moellendorffii), 3'ss of exon 3
lower sequence: GRMZM2G359234_T03 (Zea mays), 3'ss of exon 3
-----------------------------------------gtaagtgaactttccttgaaagcctaacaaaggttgacggtgatgttccatcgtttacagGTGAGGATCGCTCGTATTTTCAACACATATGGTCCTAGAATGTGCCTGGACGATGGCCGAGTTGTCAGCAACTTCGTGGCCCAG
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taatattctggtggaataaaacaaaacactgcagctccttattagcttaaaatttgttatcactccttgaatatgttttactaac-ctgaatagttaacagGTGCGTATTGCCCGTATTTTCAATACATATGGTCCTCGTATGTGCCTCGACGATGGTCGTGTGGTCAGCAATTTTGTTGCACAG
upper sequence: EFJ23020 (Selaginella moellendorffii), 3'ss of exon 3
lower sequence: GRMZM2G347717_T01 (Zea mays), 3'ss of exon 3
-----------------------------------gtaagtgaactttccttgaaagcctaac---aaaggttgacggtgatgttccatcgttta--cagGTGAGGATCGCTCGTATTTTCAACACATATGGTCCTAGAATGTGCCTGGACGATGGCCGAGTTGTCAGCAACTTCGTGGCCCAG
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tctttgtttatatgttgcaatgatgcttacgagttgtctgtgtgctttatctttattctcttcttgaagagcaaactttgacatactgtgcttccctcagGTGAGAATTGCACGCATATTTAACACATATGGCCCTCGAATGTGTTTAGATGATGGCCGAGTTGTTAGCAACTTTGTTGCACAG
upper sequence: EFJ23020 (Selaginella moellendorffii), 3'ss of exon 3
lower sequence: AT3G53520.4 (Arabidopsis thaliana), 3'ss of exon 3
--------------------------------------gtaagtgaactttccttgaaagcctaacaaaggttgacggtga-tgttccatcg-tttacagGTGAGGATCGCTCGTATTTTCAACACATATGGTCCTAGAATGTGCCTGGACGATGGCCGAGTTGTCAGCAACTTCGTGGCCCAG
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gtttccaatgttttggaatgtttagaactgatgactatttatgtccaaatcacggatataacttataagagtgatctctaactgcattttcaattttcagGTTAGAATTGCTCGTATTTTCAACACATATGGGCCCAGAATGTGCCTTGATGATGGGCGTGTTGTTAGTAACTTTGTTGCCCAG
upper sequence: EFJ23020 (Selaginella moellendorffii), 3'ss of exon 3
lower sequence: PP1S60_124V6.1 (Physcomitrella patens), 3'ss of exon 4
--------------------------------------------------------gtaagtgaactttccttgaaagcctaacaaaggttgacggtga--tgttccat--cgtttacagGTGAGGATCGCTCGTATTTTCAACACATATGGTCCTAGAATGTGCCTGGACGATGGCCGAGTTGTCAGCAACTTCGTGGCCCAG
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gtatggttcattgccgccgttggcctcttttttcgttgtctctgtagtcattatattttcaccacatttccttaatttaaaaaaactgtttctcaacaaactgaaccactctgcatgcagGTGAGGATTGCTCGGATATTCAACACGTATGGACCTAGAATGTGCATTGACGATGGACGCGTTGTCAGCAACTTCGTTGCACAGMapped 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|169074523|gb|FE481156.1|FE481156EST: GGACCGCAGAGACACTCACAATGGATTATCACAGAGGTGCAAATGTGTCA GTGAGGATCGCTCGTATTTTCAACACATATGGTCCTAGAATGTGCCTGGAC
genomic: GGACCGCAGAGACACTCACAATGGATTATCACAGAGGTGCAAATGTGTCAgtaagtgaac ... tcgtttacagGTGAGGATCGCTCGTATTTTCAACACATATGGTCCTAGAATGTGCCTGGAC
EST:
gi|169048386|gb|FE456308.1|FE456308EST: GGACCGCAGAGACACTCACAATGGATTATCACCGAGGTGCAAATGTGTCG GTGAGGATCGCTCGTATTTTCAACACATATGGTCCTAGAATGTGCCTGGAC
genomic: GGACCGCAGAGACACTCACAATGGATTATCACAGAGGTGCAAATGTGTCAgtaagtgaac ... tcgtttacagGTGAGGATCGCTCGTATTTTCAACACATATGGTCCTAGAATGTGCCTGGAC
EST:
gi|169112170|gb|FE513513.1|FE513513EST: GGACCGCAGAGACACTCACAATGGATTATCACAGAGGTGCAAATGTGTCA GTGAGGATCGCTCGTATTTTCAACACATATGGTCCTAGAATGTGCCTGGAC
genomic: GGACCGCAGAGACACTCACAATGGATTATCACAGAGGTGCAAATGTGTCAgtaagtgaac ... tcgtttacagGTGAGGATCGCTCGTATTTTCAACACATATGGTCCTAGAATGTGCCTGGAC
EST:
gi|169101487|gb|FE501460.1|FE501460EST: GGACCGCAGAGACACTCACAATGGATTATCACCGAGGTGCAAATGTGTCG GTGAGGATCGCTCGTATTTTCAACACATATGGTCCTAGAATGTGCCTGGAC
genomic: GGACCGCAGAGACACTCACAATGGATTATCACAGAGGTGCAAATGTGTCAgtaagtgaac ... tcgtttacagGTGAGGATCGCTCGTATTTTCAACACATATGGTCCTAGAATGTGCCTGGAC
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),
34 (downstream exon)
Score:
29GTGTGAGAAGTTGCTATGACGAGGGTAAGAGGACCGCAGAGACACTCACAATGGATTATCACAGAGGTGCAAATGTGTCAgtaagtgaac ... tcgtttacagGTGAGGATCGCTCGTATTTTCAACACATATGGTCCTAGAATGTGCCTGGACGATGGCCGAGTTGTCAGCAACTTCGTGGCCCAG
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atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.tgaactttccttgaaagcctaacaaaggttgacggtgatgttccatcgtttacagGTGAGGATCGCTCGTATTTTCAACACATATGGTCCTAGAATGTGCCTGGACGATGGCCGAGTTGTCAGCAACTTCGTGGCCCAG
ttccatc CT-rich tract
taacaaa TA-rich tract