Sequence
atgc intronic sequence ATGC exonic sequencegtaaacttcgaagattctttacaatgtagGTGGAAGTTCTTACAATCTCGAGCACGACATAGATTCTGGCCGAACAACAAAAGCCGAATGTATCTTCTGGAGAACACGG
Basic information
species | Selaginella moellendorffii |
transcript | EFJ32605 |
intron # | 3 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: EFJ32605 (Selaginella moellendorffii), 3'ss of exon 3
lower sequence: GRMZM2G133398_T03 (Zea mays), 3'ss of exon 3
-----------------------------gtaaact-tcgaagattctt--tacaatgtagGTGG---AAGTTCTTACAATCTCGA--GCACG-ACATAGATTCTGGCCGAACAACAAAAGCCGAATGTATCTTCTGGAGAACACGG
||| | | |||| || | |||||| ||| | | || | ||| | || || || ||||| |||||||| ||| |||||||||| ||||||||||| |
gaaaactaaaattattattcatatatacggtatagtatcgactgttaccagtgcaatgtcagtgctttcatcagctgagctccttattgcatgcacgcagGTTTTGGCCCAACAACAAGAGCAGAATGTATCTGCTGGAGAACACAG
upper sequence: EFJ32605 (Selaginella moellendorffii), 3'ss of exon 3
lower sequence: GLYMA18G38490.1 (Glycine max), 3'ss of exon 5
--------------------------------------------gtaaacttcgaagattctttacaatgtagGTGGAAGTTCTTA---CAATCTCGAGCACGA-CAT-AGATTCTGGCCGAACAACAAAAGCCGAATGTATCTTCTGGAGAACACGG
| || | ||| | || | || | || |||| | || ||| |||| ||||||||||||||||||| |||||||| | || |||||||| |
gtattcggagtttcattgaaaatttttctgctttgccttttgctttttacgtttgtgatacgttgagtctaaaatgttctcttttgaatcaattttttcttggagcatcagATACTGGCCGAACAACAAAAGCAGAATGTATTTGCTCGAGAACACTG
upper sequence: EFJ32605 (Selaginella moellendorffii), 3'ss of exon 3
lower sequence: GLYMA08G47240.1 (Glycine max), 3'ss of exon 5
---------------------------------------------gtaaacttcgaagattctttacaatgtagGTGGAAGTTCTTACAA-----TCTCGAGCACGACAT-AGATTCTGGCCGAACAACAAAAGCCGAATGTATCTTCTGGAGAACACGG
| | ||| | ||| | || | | || | || || | | ||| |||| ||||||||||||||||||| |||||||| | || |||||||| |
gtattcggagtttcattgacaaattttctgctttgtcttttgattattacctttgt-gatacgttgagactaaaatgtttctcttttgaaccaattttttcttggagcatcagATACTGGCCGAACAACAAAAGCAGAATGTATTTGCTCGAGAACACTG
upper sequence: EFJ32605 (Selaginella moellendorffii), 3'ss of exon 3
lower sequence: PP1S143_82V6.1 (Physcomitrella patens), 3'ss of exon 4
-----------------------------------gtaaacttcgaagattctttacaatgtagGTGGAAGTTC---TTACAATCTCGAGCACG-ACATAGATTCTGGCCGAACAACAAAAGCCGAATGTATCTTCTGGAGAACACGG
|| || || ||||||| || | || | ||| | | | | |||| || ||||| ||||||||||||||||||||||| ||||||| || |
acccaaagtttcaatagtttgtatgaatgcttttagttggtctc-aatcttctttaaaacctgtgtactcacttgctttatgtttttttgtgtgtgaatagGTTTTGGCCAAACAACAAAAGCCGAATGTATCTATTGGAGAATACTG atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.gtaaacttcgaagattctttacaatgtagGTGGAAGTTCTTACAATCTCGAGCACGACATAGATTCTGGCCGAACAACAAAAGCCGAATGTATCTTCTGGAGAACACGG
ttctttac CT-rich tract
attcttta 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gtaaacttcgaagattctttacaatgtagGTGGAAGTTCTTACAATCTCGAGCACGACATAGATTCTGGCCGAACAACAAAAGCCGAATGTATCTTCTGGAGAACACGG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TGGAGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GGAGAA