Sequence
atgc intronic sequence ATGC exonic sequencegtaagttcttgtctcagtttctattcgataggatagtccgactcacttgtctgagcatcagGTGGGAGATTTTGGACTTGCAAGATGGCAACCCAATGGAGAACTCGGAGTAGAGACAAGAGTCATTGGCGCTTTCGG
Basic information
species | Selaginella moellendorffii |
transcript | EFJ12405 |
intron # | 5 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: EFJ12405 (Selaginella moellendorffii), 3'ss of exon 5
lower sequence: PP1S59_359V6.1 (Physcomitrella patens), 3'ss of exon 5
------------------------------------------------------gtaagttcttgtctcagtttcta-ttcgatag--gatagtccgactcacttgtctgagcatcagGTGGGAGATTTTGGACTTGCAAGATGGCAACCCAATGGAGAACTCGGAGTAGAGACAAGAGTCATTGGCGCTTTCGG
| | | | | | || ||| | | | || || | | | || | || ||||||| ||||||||||||||||||||||||||||| ||||| | || || ||||| || || |||||| | |||||
gtatgtggcgttccacacactgtttcgaacggtaaatgtttctgtttattgtctgaatggccacatgcctattcctaatgtggttaccgacagcacaagtg--ttttttggatatcagGTTGGAGATTTTGGACTTGCAAGATGGCAACCAGATGGACATTGTGGTGTGGAGACCAGGGTTATTGGCACCTTCGG
upper sequence: EFJ12405 (Selaginella moellendorffii), 3'ss of exon 5
lower sequence: PP1S336_36V6.1 (Physcomitrella patens), 3'ss of exon 6
----------------------------------------------gtaagttcttgtct--cagtttct---attcgataggatagtccga----ctcacttgtctgagcatcagGTGGGAGATTTTGGACTTGCAAGATGGCAACCCAATGGAGAACTCGGAGTAGAGACAAGAGTCATTGGCGCTTTCGG
| | || || ||| |||| | | || | | | || | || | || |||||||||||||||||||||| ||||||||||| || | ||| | || || ||||| || || |||||| |||||||
gtatgcatcgtagcagaaattcttttcaattcaagtagttccatttcctactcctaagctggcagattcttacacttgagtagtcattgagagaagttttgttctttggatatcagGTGGGAGATTTTGGACTCGCAAGATGGCAGCCAGACGGACATTGTGGTGTGGAGACCAGGGTTATTGGCACTTTCGG atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.tcttgtctcagtttctattcgataggatagtccgactcacttgtctgagcatcagGTGGGAGATTTTGGACTTGCAAGATGGCAACCCAATGGAGAACTCGGAGTAGAGACAAGAGTCATTGGCGCTTTCGG
gactcac putative branch site (score: 2)
cttgtct CT-rich tract
tttctatt 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gtaagttcttgtctcagtttctattcgataggatagtccgactcacttgtctgagcatcagGTGGGAGATTTTGGACTTGCAAGATGGCAACCCAATGGAGAACTCGGAGTAGAGACAAGAGTCATTGGCGCTTTCGG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TGGAGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GGAGAA