Sequence
atgc intronic sequence ATGC exonic sequencegttagccggtgttcgtcagctctcctgttttgaggattttctattgtctagaggattatgtgtgggatctttgtggcagGTGGTTAATAGGTATATTGATCAAGGAGTGGCGGAGCTTGTACCTGGTGTCCTATTTATTGACGAG
Basic information
species | Selaginella moellendorffii |
transcript | EFJ27201 |
intron # | 6 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: EFJ27201 (Selaginella moellendorffii), 3'ss of exon 6
lower sequence: LOC_Os07g08170.1 (Oryza sativa), 3'ss of exon 6
-----------------------gttagccggtgttcgtcagctctcctgttttgaggattttctattgtctagaggattatgtgtgggatctttg--------tggcagGTGGTTAATAGGTATATTGATCAAGGAGTGGCGGAGCTTGTACCTGGTGTCCTATTTATTGACGAG
| | | || || || ||| | | | | | | | || || | | |||| | || |||||||||| || ||||||||| ||||| | || ||||||||||||||||| || || |||||||||
gtattcaaatttcccatgtagcagcactgctgcttttaaaagtggaccacatttaataaacatgtcaggattggcatatgatctttaacatctatactgtatgttgctagGTGGTTAACAGATATATTGATGAAGGAATTGCTGAGCTTGTACCTGGTGTTCTGTTCATTGACGAG
upper sequence: EFJ27201 (Selaginella moellendorffii), 3'ss of exon 6
lower sequence: GRMZM2G018697_T03 (Zea mays), 3'ss of exon 7
--------------gttagccggtgttcgtcagctctcctgttttgaggattttctattgtc-tagaggattatgtgtgggatctttg-----------tggcagGTGGTTAATAGGTATATTGATCAAGGAGTGGCGGAGCTTGTACCTGGTGTCCTATTTATTGACGAG
| || | || | ||| | | | ||| || | || | || | | | | ||| || |||||||| ||||| ||||| ||| ||||| | || ||||||||||||||||| | || ||||| |||
gttttcttctttttgactaccattttttttagtttcttaggcagtatcaaatttggataaccatataagaattttcagctggtttttaattttatatgatgacagGTGGTAAATAGATATATCGATGAAGGAATTGCAGAGCTTGTACCTGGTGTTTTGTTCATTGATGAG
upper sequence: EFJ27201 (Selaginella moellendorffii), 3'ss of exon 6
lower sequence: PP1S4_73V6.1 (Physcomitrella patens), 3'ss of exon 7
-----------------------------------------------------------------gtta-gccggtgttcgtcagctc-tcctgttttgaggattttctattgtctagaggattatgtgtgggatctttgtggcagGTGGTTAATAGGTATATTGATCAAGGAGTGGCGGAGCTTGTACCTGGTGTCCTATTTATTGACGAG
||| | || || | | ||| | | ||| | || || || | || |||||| ||||| || |||||||||||||| ||||| |||||||| || ||||| || || | || |||
gtaatttttcttgacgctgtgctgtgagtatggacaagaaacctcgtacaaagtcgtgttgtaacattatattattaatcaagaggtaatgctgagtcagaagggcaacgagtttgagatggtttctcgttc-atttgtggtgcagGTTGTTAACAGATATATTGATCAAGGTGTGGCAGAGCTTGTTCCAGGTGTTCTTTTCGTGGATGAGMapped 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|169060614|gb|FE467352.1|FE467352EST: AGCCGAAAAAGACTGAGATCACTGATAAGCTGCGGCAGGAAATCAACAAG GTGGTTAATAGGTATATTGATCAAGGAGTGGCGGAGCTTGTACCTGGTGTC
genomic: AGCCGAAAAAGACTGAGATCACTGATAAACTACGGCAAGAAATCAACAAGgttagccggt ... tttgtggcagGTGGTTAATAGGTATATTGATCAAGGAGTGGCGGAGCTTGTACCTGGTGTC
atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.ctgttttgaggattttctattgtctagaggattatgtgtgggatctttgtggcagGTGGTTAATAGGTATATTGATCAAGGAGTGGCGGAGCTTGTACCTGGTGTCCTATTTATTGACGAG
tctttgt CT-rich tract
attttctatt TA-rich tract
Putative cis-regulatory sequences
atgc | intron | ATGC | exonic elements by Pertea et al. |
ATGC | exon | atgc | putative intronic elements |
| | ATGC | putative exonic elements identified for retained introns |
10 20 30 40 50 60 70 80 90 100 110 120 130 140 150 160 170 180 190 200 210 220
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gttagccggtgttcgtcagctctcctgttttgaggattttctattgtctagaggattatgtgtgggatctttgtggcagGTGGTTAATAGGTATATTGATCAAGGAGTGGCGGAGCTTGTACCTGGTGTCCTATTTATTGACGAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGGAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GGAGCT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GAGCTT