Sequence
atgc intronic sequence ATGC exonic sequencegtaagcgtgttatagtttgtcgtcacgtttctgttttgacttcgtgtcactttatcttgaagGTATTCAAACATTTTTGTCACAGCTCCAAGCCCAGAGAACTTGAAGACCTTGTTTGAGTTTGTATGCAAAGGCTTTGATGCACTTGAGTACAAG
Basic information
species | Selaginella moellendorffii |
transcript | EFJ37113 |
intron # | 7 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: EFJ37113 (Selaginella moellendorffii), 3'ss of exon 7
lower sequence: GLYMA05G31850.1 (Glycine max), 3'ss of exon 7
------------------------------gtaagcgtgttatagtt-tgtcgtcacgtttctgttttg-acttcgtgtcactttatct-tgaagGTATTCAAACATTTTTGTCACAGCTCCAAGCCCAGAGAACTTGAAGACCTTGTTTGAGTTTGTATGCAAAGGCTTTGATGCACTTGAGTACAAG
| | |||| || | | | || | | | ||| | | | | | || | | || ||||||||||| || ||||| || || || ||||| ||||| ||||| ||||||||||| ||| ||||| |||| |||| ||| ||||| ||||||
gtactgtgccttctggacagatatatttatatggaca-actatatttatatggacaactatatttttagtatcttatagaaaattctgtgtgtagGTATTCAAATATCTTTGTGACTGCACCCAGCCCTGAGAATTTGAAAACCTTGTTTGACTTTATATGCGAAGGTTTTGTTGCTCTTGACTACAAG
upper sequence: EFJ37113 (Selaginella moellendorffii), 3'ss of exon 7
lower sequence: GLYMA08G15130.1 (Glycine max), 3'ss of exon 7
------------------gtaagcgtgtt---atagtttgtcgtcacgtttctgttttgacttcgtgtcactttatcttgaagGTATTCAAACATTTTTGTCACAGCTCCAAGCCCAGAGAACTTGAAGACCTTGTTTGAGTTTGTATGCAAAGGCTTTGATGCACTTGAGTACAAG
| | || || | | || | || |||| || | | | | | || ||||||||||| || ||||| || || || ||||| ||||| ||||| ||||||||||| ||| ||||||| || |||||||| ||| | ||||||
gtactgtgccttctggacagagatatatttatatggatagttgcaacaattcttttagtatcttataagaaaattctgtgtagGTATTCAAATATCTTTGTGACTGCACCCAGCCCTGAGAATTTGAAAACCTTGTTTGACTTTATATGCAAGGGTTTTGATGCTCTTAACTACAAG
upper sequence: EFJ37113 (Selaginella moellendorffii), 3'ss of exon 7
lower sequence: GLYMA13G43960.1 (Glycine max), 3'ss of exon 7
---------------------------------gtaagcgtgttatagtttgtcgtcacgtttctgttttgacttcgt-gtcactttatct-tgaagGTATTCAAACATTTTTGTCACAGCTCCAAGCCCAGAGAACTTGAAGACCTTGTTTGAGTTTGTATGCAAAGGCTTTGATGCACTTGAGTACAAG
|| | || | | | || || | || || | | | | ||||| || ||||||||||| || ||||| || || || ||||| || || ||||| ||||||||||| ||| || |||||| ||||| |||||||| ||||||
gtactatgcttttcagacataaagatatcttagatatgttcatttgtgatagagaagacaatttttttaggatcttattgggaaactatctgtgtagGTATTCAAATATCTTTGTAACTGCACCCAGCCCTGATAATTTGAAAACCTTGTTTGAATTTATACTCAAAGGTTTTGAGGCACTTGACTACAAG
upper sequence: EFJ37113 (Selaginella moellendorffii), 3'ss of exon 7
lower sequence: Vv07s0031g01750.t01 (Vitis vinifera), 3'ss of exon 7
---------------------------------------------------------gtaagcgtgttatagtttgtcgtcacgtttctgttttgacttcgtgtcact--------------ttat-cttgaagGTATTCAAACATTTTTGTCACAGCTCCAAGCCCAGAGAACTTGAAGACCTTGTTTGAGTTTGTATGCAAAGGCTTTGATGCACTTGAGTACAAG
| || | | || | | ||||| | |||| || || || | |||| ||| || |||||||| || ||||| || || |||||||| || ||||||||||| ||||| || || | ||||| || |||||||||||||| ||||||
gtaatatgcttgagctacatattcttatttaatttttttttaattattagttatccttttttttccttttcctgtgcctttctgtttccatcttgaatttgttacattctgataaaagaaatttatgcttatagTTATTCAAATATCTTTGTAACTGCCCCAAGCCCTGATAACTTGAAGACTTTGTTCGAATTCATTTGCAAGGGATTTGATGCACTTGAATACAAG
upper sequence: EFJ37113 (Selaginella moellendorffii), 3'ss of exon 7
lower sequence: PP1S93_182V6.1 (Physcomitrella patens), 3'ss of exon 7
-----------------------------------------------------------------------------------------------------------------gtaagcgtgttatagtttgtcgtcacgt--ttctgttttgacttcgtgtcactttatcttgaagGTATTCAAACATTTTTGTCACAGCTCCAAGCCCAGAGAACTTGAAGACCTTGTTTGAGTTTGTATGCAAAGGCTTTGATGCACTTGAGTACAAG
| || | || || | | ||||| | | || |||| | | ||||| | ||||| || || || ||||| ||||||||||| || |||||||||||||| ||||| || || | | || |||||||| ||| | || || |||
gtatgggtttactttaaataacattatggtcccaacatgcatggttgtgtgtttgagccttgtttgaacttggagtgttaattgtctcatgcaagtaccgctagcaattgaaactgagaattgtacagct-attgtcacagaatacacttctgacatgga--cacttcacac---agGTACTCGAATATCTTTGTGACAGCTCCAAGTCCTGAGAACTTGAAGACATTGTTCGAATTCATCTTTAAGGGCTTTGACGCAATGGAATATAAG atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.tgttatagtttgtcgtcacgtttctgttttgacttcgtgtcactttatcttgaagGTATTCAAACATTTTTGTCACAGCTCCAAGCCCAGAGAACTTGAAGACCTTGTTTGAGTTTGTATGCAAAGGCTTTGATGCACTTGAGTACAAG
ttttgac putative branch site (score: 3)
ctttatctt putative PPT
tttatctt 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gtaagcgtgttatagtttgtcgtcacgtttctgttttgacttcgtgtcactttatcttgaagGTATTCAAACATTTTTGTCACAGCTCCAAGCCCAGAGAACTTGAAGACCTTGTTTGAGTTTGTATGCAAAGGCTTTGATGCACTTGAGTACAAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GCAAAG