Sequence
atgc intronic sequence ATGC exonic sequencegtacgtagaacttctgttttcgatatattgatgctaggcttccgcctttgcagGTTTACTGGTGGCACGATAAGTACCGCCCGAGAAAGCCCAAGTATTTTAACCGAGTCCACACGGGCTACGAGTGGAACAAATACAACCAGACGCATTATG
Basic information
| species | Selaginella moellendorffii |
| transcript | EFJ19424 |
| intron # | 8 |
| splice site | 3' |
| intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: EFJ21082 (Selaginella moellendorffii), 3'ss of exon 8
lower sequence: LOC_Os03g58590.1 (Oryza sativa), 3'ss of exon 11
-----------------------------------------------gtacgtagaacttctgttttcgatatattgatgctaggcttccgcctttgcagGTTTACTGGTGGCACGATAAGTACCGCCCGAGAAAGCCCAAGTATTTTAACCGAGTCCACACGGGCTACGAGTGGAACAAATACAACCAGACGCATTATG
| | | ||||| ||| | |||| | | | | ||||| || ||||||||||| ||||| || || ||||| || ||||| || || || || || || || || ||||||||||||||||||||||| || ||||
atttatttaacaacttaagtgcattgatctgcttccagtgaacttgaatgcaagctgactttgtttctgatgaaaatatgcctgtttaatgtgctcacagGTATATTGGTGGCACGACAAGTATCGACCAAGAAAACCGAAGTACTTCAATCGGGTGCATACTGGATATGAGTGGAACAAATACAACCAGACTCACTATG
upper sequence: EFJ21082 (Selaginella moellendorffii), 3'ss of exon 8
lower sequence: GRMZM2G072156_T01 (Zea mays), 3'ss of exon 10
---------------------------------------------gtacgtagaact--tctgttttcgatatattgatgctaggcttccgcctttgcagGTTTACTGGTGGCACGATAAGTACCGCCCGAGAAAGCCCAAGTATTTTAACCGAGTCCACACGGGCTACGAGTGGAACAAATACAACCAGACGCATTATG
| | || | |||| ||| | |||| | |||||||| |||||||||||||| ||||| || || |||||||||||||| || || || || ||||| || || || ||||| |||||||||||||| |||||||
cttacacacaagaagcattacttagcaactttggtgcatcgtactgcatgtgaactcagctagtttctgatggcatattgcttgttcaatatacttgcagGTGTACTGGTGGCACGACAAGTATCGACCAAGAAAGCCCAAGTACTTCAATCGGGTGCACACTGGATATGAATGGAATAAATACAACCAGACTCATTATG
upper sequence: EFJ21082 (Selaginella moellendorffii), 3'ss of exon 8
lower sequence: GLYMA19G37280.1 (Glycine max), 3'ss of exon 11
-------------------------------------------gtacgtagaacttctgttttcgatatattgatgctaggcttccgccttt----gcagGTTTACTGGTGGCACGATAAGTACCGCCCGAGAAAGCCCAAGTATTTTAACCGAGTCCACACGGGCTACGAGTGGAACAAATACAACCAGACGCATTATG
|| || ||| | || ||| || | || | | ||||||||| |||||||| || || ||| | || || ||||| |||||||| ||||| || ||||| || || |||||||||||||| || ||||| || ||||
tcaatggtgtattttggtattttagtgagaaatagaaagcttcctatttattttttcctcatcatttaaattcgtgactgactaataaatgttggagcagGTTTATTGGTGGCATGACAAATACAGACCTAGGAAGCCGAAGTATTTCAACCGTGTTCACACTGGATATGAGTGGAACAAATATAATCAGACTCACTATG
upper sequence: EFJ21082 (Selaginella moellendorffii), 3'ss of exon 8
lower sequence: GLYMA03G34590.1 (Glycine max), 3'ss of exon 11
-----------------------------------------------gtacgtagaacttctgttttcgatatattgatgctaggcttccgcctttgcagGTTTACTGGTGGCACGATAAGTACCGCCCGAGAAAGCCCAAGTATTTTAACCGAGTCCACACGGGCTACGAGTGGAACAAATACAACCAGACGCATTATG
| | ||| | ||| || | | || | ||||||||| |||||||| || || ||| | || || ||||| |||||||| ||||| || ||||| || || |||||||||||||| || ||||| || ||||
actggtatattttggtattttaatgagaaatagaaagcttgttattttttttttctccttgtcatttaaatttgtgactgactaataaatgttggagcagGTTTATTGGTGGCATGACAAATACAGGCCTAGGAAGCCGAAGTATTTCAACCGTGTTCACACTGGATATGAGTGGAACAAATATAATCAGACTCACTATG
upper sequence: EFJ21082 (Selaginella moellendorffii), 3'ss of exon 8
lower sequence: Vv08s0007g04370.t01 (Vitis vinifera), 3'ss of exon 11
---------------------gtacgtagaacttctgt----tttcgatatattgatgctaggcttccgcct-----ttgcagGTTTACTGGTGGCACGATAAGTACCGCCCGAGAAAGCCCAAGTATTTTAACCGAGTCCACACGGGCTACGAGTGGAACAAATACAACCAGACGCATTATG
| || || ||| | |||||| | | | | |||||||| ||||||||||| || |||||||| || || ||||| ||||| || ||||| || || || || || ||||||||||||||||| || || || ||||
gtgtgtgatattggccatcttctttttacaagccttgtcaaatcatattatatttttctaaacatataaaatgtggattgcagGTGTACTGGTGGCATGACAAGTACCGACCTAGGAAGCCAAAGTACTTCAACCGTGTTCATACTGGATATGAGTGGAACAAATACAATCAAACTCACTATG
upper sequence: EFJ21082 (Selaginella moellendorffii), 3'ss of exon 8
lower sequence: EDP01894 (Chlamydomonas reinhardtii), 3'ss of exon 1
----------gtacgtagaacttctgttttcgatatattgatgctaggcttccgcctttgcagGTTTAC-TGGTGGCACGATAAGTACCGCCCGAGAAAGCC-CAAGTATTTTAACCGAGTCCACACGGGCTACGAGTGGAACAAAT-ACAACCAGACGCATTATG----------------------------------
|| | | || | | || | ||| ||| | |||| ||| | | | | | | | | | | | ||| | ||| || ||| ||| |||||| | | |||| | || | | |
ccgcacaaaaccacttgggcctacagcttacatccctctgacgcttgccttcaccctcgcctgtcccatgcgcccttgctactcctcctcctcctgccagCTACGAGTGGAACAAGTACAACCAGACGCACTACGACTCGGACAACCCGCCGCCCAAGGTGGTGCAGGGCTACAAGTTCAACATCATGTACTTCGACCTC atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.gtacgtagaacttctgttttcgatatattgatgctaggcttccgcctttgcagGTTTACTGGTGGCACGATAAGTACCGCCCGAGAAAGCCCAAGTATTTTAACCGAGTCCACACGGGCTACGAGTGGAACAAATACAACCAGACGCATTATG
tattgat putative branch site (score: 3)
cttccgccttt putative PPT
atatattgat 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gtacgtagaacttctgttttcgatatattgatgctaggcttccgcctttgcagGTTTACTGGTGGCACGATAAGTACCGCCCGAGAAAGCCCAAGTATTTTAACCGAGTCCACACGGGCTACGAGTGGAACAAATACAACCAGACGCATTATG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGTGGA
