Sequence
atgc intronic sequence ATGC exonic sequence...ctgttacttttaacagctaatgcaatctggatgagtcacctatgaattccatactggaatctgttgcgcttttgttgatcattattattttgcaatccagGCTAGGGGATTGAAGAAGCACTTGAAGAGGCTCAATGCGCCCAAGCATTGGATGCTCGACAAGCTTGGCGGAGCTTTTGTAAGTAAAAAATATTTTCTAG
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GRMZM2G158584_T05 (Zea mays), 3'ss of exon 1
lower sequence: PP1S461_1V6.1 (Physcomitrella patens), 3'ss of exon 1
-ctgttacttttaacagctaatgcaatctggatgagtcacctatgaattccatactggaatctgttgcgcttttgttgatc-attattattttgcaatccagGCTAGGGGATTGAAGAAGCACTTGAAGAGGCTCAATGCGCCCAAGCATTGGATGCTCGACAAGCTTGGCGGAGCTTTTGTAAGTAAAAAATATTTTCTAG
||| | || || | || | || | | | || || | | | || || || | || || | || ||| | ||||| | || ||||||||||| |||||||||||||||||||||||||||||||||| |||||| | || || || ||
cctgcaagcttaaaatgggggtggtttagggttttgaagttggttgatg--atgaggaagtttgagtcgtgttctgagttctgtttctcttgtgcgttttagGCTCGTGGTTTGAAGAAGCATCTGAAGAGGCTCAATGCGCCCAAGCATTGGATGCTTGACAAGTTGGGTGGTGCCTTC----------------------
upper sequence: GRMZM2G158584_T05 (Zea mays), 3'ss of exon 1
lower sequence: PP1S2_16V6.1 (Physcomitrella patens), 3'ss of exon 1
ctgttacttttaaca--gctaatgcaatctggatgagtcacctatgaattccatactggaatctgttgcgcttttgttgatcattattattttgcaatccagGCTAGGGGATTGAAGAAGCACTTGAAGAGGCTCAATGCGCCCAAGCATTGGATGCTCGACAAGCTTGGCGGAGCTTTTGTAAGTAAAAAATATTTTCTAG
| | || || | | || | || ||| | | || ||| | | || || ||| |||| || | |||||| | || ||||||||||| |||||||||||||||||||||| ||| |||||||| |||||| | || || || |||
-tttcgtttacgtcattgttcgcttcatttttgtggtcggtttatcgactggattttggcctgtcatggtctcctgt-attcatctttccaatctctggcagGCTCGCGGTTTGAAGAAGCATTTGAAGAGGCTCAATGCGCCCAGGCACTGGATGCTTGACAAGTTGGGTGGTGCCTTT----------------------
upper sequence: GRMZM2G158584_T05 (Zea mays), 3'ss of exon 1
lower sequence: PP1S38_194V6.1 (Physcomitrella patens), 3'ss of exon 1
ctgttacttttaacag-ctaatgcaatctggatgagtcacctatgaattccatactggaatctgttgcgcttttgttgatcattattattttgcaa-tccagGCTAGGGGATTGAAGAAGCACTTGAAGAGGCTCAATGCGCCCAAGCATTGGATGCTCGACAAGCTTGGCGGAGCTTTTGTAAGTAAAAAATATTTTCTAG
| | ||| | || | || | || | |||| | || | ||| || || | ||| || | ||| || ||||| | || ||||||||||| ||||||||||||||||| |||| ||||||||||| |||||| | || || || ||
ttatcggtttacgtaaacttgctttacttgtacgaagagtgcgtttgttcctgagtg--acgtgtggcttgttacgaactaattgttttcttgtgtctctagGCTCGCGGTTTGAAGAAGCATTTGAAGAGGCTCAATGCTCCCAGACATTGGATGCTTGACAAGTTGGGTGGTGCCTTC----------------------
upper sequence: GRMZM2G158584_T05 (Zea mays), 3'ss of exon 1
lower sequence: PP1S81_172V6.1 (Physcomitrella patens), 3'ss of exon 1
-ctgttacttttaacagctaatgcaatctggatgagtcacctatgaattccatactggaatctgttgcgcttttgttgatcatt--attattttgcaatccagGCTAGGGGATTGAAGAAGCACTTGAAGAGGCTCAATGCGCCCAAGCATTGGATGCTCGACAAGCTTGGCGGAGCTTTTGTAAGTAAAAAATATTTTCTAG
||| ||| ||| || | ||| | | ||| | | | | | || || | || ||| | || ||||||| | |||||| | || ||||||||||| ||||||||||||||||||||||||||||||||||||||||| | || || || |||
gaggttggtttcg-tagc--atatttttgaaatgtgcgctgatttttttcttttttttatttttttacgttgtttttgttttttttgttatttttttcttcagGCTCGTGGTTTGAAGAAGCATTTGAAGAGGCTCAATGCGCCCAAGCATTGGATGCTCGACAAATTGGGTGGCGCCTTT----------------------
upper sequence: GRMZM2G158584_T05 (Zea mays), 3'ss of exon 1
lower sequence: PP1S282_25V6.1 (Physcomitrella patens), 3'ss of exon 1
ctgttacttttaacagctaatgcaatctggatgagtcaccta--tgaattccatactggaatctgttgcgcttttgttgatcattattattttgcaatccagGCTAGGGGATTGAAGAAGCACTTGAAGAGGCTCAATGCGCCCAAGCATTGGATGCTCGACAAGCTTGGCGGAGCTTTTGTAAGTAAAAAATATTTTCTAG
|| | | | | | | || | || || ||| || | | | | | | | || | ||| | |||||||| | || ||||||||||| |||||||||||||||||||| |||||||||||||| |||||||| || || || ||
atgctggagt-gagaatcagggtcttcggtattttgggactggctgatcaccctgttcaattggtacgtgtgctaaacatgtgttgcggtgttg-attccagGCTCGCGGTTTGAAGAAGCATTTGAAGAGGCTCAATGCGCCTAAGCATTGGATGCTTGACAAGCTGGGTGGCGCCTTC----------------------
upper sequence: GRMZM2G158584_T05 (Zea mays), 3'ss of exon 1
lower sequence: EFJ26570 (Selaginella moellendorffii), 3'ss of exon 1
ctgttacttttaacagctaatgcaatctggatgagtcacctatgaattccatactggaatctgttgcgcttttgttga-tcattattattttgcaatccagGCTAGGGGATTGAAGAAGCACTTGAAGAGGCTCAATGCGCCCAAGCATTGGATGCTCGACAAGCTTGGCGGAGCTTTTGTAAGTAAAAAATATTTTCTAG
|| | || | | | | ||| || || | |||| | || ||||||||| ||||| ||||||||| ||||||||||||||||| |||||| ||||| || ||
----------------------------------------------------gtgagagcgcgcggctatcgcgggatcttacgattcttgtgttgtgcagGTGCGCGGGCCGAAGAAGCATCTGAAGGTGCTCAATGCCCCCAAGCATTGGATGCTGAGCAAGCTCGGCGGTGCCTTC---------------------- atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.attccatactggaatctgttgcgcttttgttgatcattattattttgcaatccagGCTAGGGGATTGAAGAAGCACTTGAAGAGGCTCAATGCGCCCAAGCATTGGATGCTCGACAAGCTTGGCGGAGCTTTTGTAAGTAAAAAATATTTTCTAG
tgttgat putative branch site (score: 4)
ttatttt putative PPT
ttttgttgatcattat 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
ctgttacttttaacagctaatgcaatctggatgagtcacctatgaattccatactggaatctgttgcgcttttgttgatcattattattttgcaatccagGCTAGGGGATTGAAGAAGCACTTGAAGAGGCTCAATGCGCCCAAGCATTGGATGCTCGACAAGCTTGGCGGAGCTTTTGTAAGTAAAAAATATTTTCTAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - CAAGCT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GGAGCT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GAGCTT