Sequence
atgc intronic sequence ATGC exonic sequencegtaagcatcagttgaagcattatttttgtcttatctacccataccaaactgtatccaattatgttatgtatgcagATTTGTTGAGATTATGGCTCCAGTGTTTTCACGAGATGCATGGCATTGTGTGTGGCATATGATTCAG
Basic information
species | Glycine max |
transcript | GLYMA05G30830.1 |
intron # | 10 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GLYMA05G30830.1 (Glycine max), 3'ss of exon 10
lower sequence: AT1G24570.1 (Arabidopsis thaliana), 3'ss of exon 9
------------gtaagcatcagttgaagcattatttttgtcttatcta--cccataccaaactgtatccaattatgttatgtatgcagATTTGTTGAGATTATGGCTCCAGTGTTTTCACGAGATGCATGGCATTGTGTGTGGCATATGATTCAG
| | || | || ||| | | ||| || || || || | | | | || | |||||| || ||||| |||||||| || || ||| |||||||||||| || |||||||||||||| |||
gtatgtttcaaaaaacgtctctatcaaactcaagtttcagacatatttaaaccattagtaacttcgttatgtctttaataaaaaaacagATTCGTGGAGATAATGGCTCCTGTATTCTCAAGAGATGCATGGCGCTGCGTGTGGCATATGATCCAG
upper sequence: GLYMA05G30830.1 (Glycine max), 3'ss of exon 10
lower sequence: AT3G26440.4 (Arabidopsis thaliana), 3'ss of exon 10
gtaagcatcagttgaagcattatttttgtcttatctacccataccaaactgtatccaattatgttatgtatg---------cagATTTGTTGAGATTATGGCTCCAGTGTTTTCACGAGATGCATGGCATTGTGTGTGGCATATGATTCAG---------------------------------
||| | ||| | || | | || || ||||| || ||||| ||| ||| || | | ||| ||| | ||||||||||||||||| || || |||| ||||||| ||||||||||||||||||||||
gtatggatctcatttgtcaaaaccaatacaataagtattcatactctcttg-atcca-ttaagttttgcacggttccttatcagGTTTATAGAGATTATGGCTCCAGTTTTCTCTAGAGAGGCATGGCGTTGTGTGTGGCATATGATTCAGAATGACTTGGTTCACGGTTGGGGTCTTGACTTT
upper sequence: GLYMA05G30830.1 (Glycine max), 3'ss of exon 10
lower sequence: AT1G13000.2 (Arabidopsis thaliana), 3'ss of exon 10
gtaagcatcagttgaagcattatttttgtcttatctacccataccaaactgt--atccaattatgttatgtatgcagATTTGTTGAGATTATGGCTCCAGTGTTTTCACGAGATGCATGGCATTGTGTGTGGCATATGATTCAG---------------------------------
||| | | | || | ||| || | | |||| ||| | || | || | ||| | ||| ||| | ||||||||||||||||| || ||| |||||||||||| ||| ||||||||||||||||||
gtacgtagtc-tcaaatgttcattacaaaaacatagatctatacagtactcttgattccat-gtaatattcttacagGTTTATAGAGATTATGGCTCCAGTATTCTCAAGAGATGCATGGCGTTGCGTGTGGCATATGATTCAGAACGATTTGGTTCACGGTTGGGGTCTTGATTTC
upper sequence: GLYMA05G30830.1 (Glycine max), 3'ss of exon 10
lower sequence: Vv00s0187g00030.t01 (Vitis vinifera), 3'ss of exon 5
---------------gtaagcatcagt-tgaagcattatttttgtcttatctacccat---------accaaactgtatccaattatgttatgtatgcagATTTGTTGAGATTATGGCTCCAGTGTTTTCACGAGATGCATGGCATTGTGTGTGGCATATGATTCAG
|| | | | | | | | || | ||| | || || ||| | | | | || |||||| ||||||||||| |||||||| || ||||| |||||||||||| ||||||||||||||| |||||
ttgagcagtactgttgttattttttctgttcattcccactcctgcatggtctgacaatggattagaaacaaaattattagttttccttttccaaatgcagGTTTGTTGAGATCATGGCTCCTGTATTTTCTAGAGATGCATGGCGGTGTGTGTGGCATATGCTTCAG
upper sequence: GLYMA05G30830.1 (Glycine max), 3'ss of exon 10
lower sequence: Vv13s0106g00570.t01 (Vitis vinifera), 3'ss of exon 1
---------------------------gtaagcatcagt-tgaagcattatttttgtcttatctacccat---------accaaactgtatccaattatgttatgtatgcagATTTGTTGAGATTATGGCTCCAGTGTTTTCACGAGATGCATGGCATTGTGTGTGGCATATGATTCAG
|| | | | | | | | || | ||| | || || ||| | | | | || |||||| ||||||||||| |||||||| || ||||| |||||||||||| ||||||||||||||| |||||
gtatgaaaagctttgagcaatactattgttattttttctgttcattcccactcctgcatggtctgacaatggattagaaacaaaattattagttttccttttccaaatgcagGTTTGTTGAGATCATGGCTCCTGTATTTTCTAGAGATGCATGGCGGTGTGTGTGGCATATGCTTCAG
upper sequence: GLYMA05G30830.1 (Glycine max), 3'ss of exon 10
lower sequence: Vv01s0137g00770.t01 (Vitis vinifera), 3'ss of exon 10
---------------------------gtaagcatcagt-tgaagcattatttttgtcttatctacccat---------accaaactgtatccaattatgttatgtatgcagATTTGTTGAGATTATGGCTCCAGTGTTTTCACGAGATGCATGGCATTGTGTGTGGCATATGATTCAG
|| | | || | | | | || | ||| | || || ||| | | || | || |||||| ||||||||||| |||||||| || ||||| |||||||||||| ||||||||||||||| |||||
gtatgaaaagctttgagcagtactattgttattttttgtgttcattcccactcctgcatggtctgacaatggattagaaacaaaattattagtttttcttttccaaatgcagGTTTGTTGAGATCATGGCTCCTGTATTTTCTAGAGATGCATGGCGGTGTGTGTGGCATATGCTTCAG
upper sequence: GLYMA05G30830.1 (Glycine max), 3'ss of exon 10
lower sequence: PP1S129_53V6.1 (Physcomitrella patens), 3'ss of exon 10
-------------------gtaagcatcagttgaagcattatttttgtctt------------atctacccataccaaactgt-----atccaattat-gttatgta-tgcagATTTGTTGAGATTATGGCTCCAGTGTTTTCACGAGATGCATGGCATTGTGTGTGGCATATGATTCAG
|| | || | ||| || || | || ||| | ||| || | || | ||| || ||||||||||||||||| |||||||| |||||||||||| | ||||||| ||| | ||| | || || |||
gtaataagtcaacctgtatttagttagtgattcgtgtcttaccttcctcctttggtcgttgaaatttactgtctgttagttgttgggtatttacttcttgtttaatactgcagATTTGTTGAGATCATGGCTCCTGTGTTTTCACGAAAAGCATGGCGTTGCATCTGGTACATAATACAG
upper sequence: GLYMA05G30830.1 (Glycine max), 3'ss of exon 10
lower sequence: EFJ04271 (Selaginella moellendorffii), 3'ss of exon 5
gtaagcatcagttgaagcattatttttgtcttatctacccataccaaactgtatccaattatgttatgtatgcagATTTGTTGAGATTATGGCTCCAGTGTTTTCACGAGATGCATGGCATTGTGTGTGGCATATGATTCAG---------------------------------
||||| | | || || | ||| |||| | | || | | | |||| | | | || | ||||||||| ||||| ||||||||||| ||||| || | || |||| ||||||||||||||||||||
gtaagttttgtgtttagt-ttctatttatcttccttgcttctagctatttctatcgactgagtttgc---tacagATTTGTGGAGATCATGGCTCCAGTTTTTTCGCGCAAGGCCTGGCGCTGTGTGTGGCATATGATTCAAAATGACTTGGTGCATGGCTGGGGACTAGACTTT
upper sequence: GLYMA05G30830.1 (Glycine max), 3'ss of exon 10
lower sequence: EFJ32148 (Selaginella moellendorffii), 3'ss of exon 6
gtaagcatcagttgaagcattatttttgtcttatctacccataccaaactgtatccaattatgttatgtatgcagATTTGTTGAGATTATGGCTCCAGTGTTTTCACGAGATGCATGGCATTGTGTGTGGCATATGATTCAG---------------------------------
||||| | | || || | ||| |||| | | || | | | |||| | | | || | ||||||||| ||||| ||||||||||| ||||| || | || |||| ||||||||||||||||||||
gtaagttttgtgtttagt-ttctatttatcttcattgcttctagctatttctatcgactgagtttgc---tacagATTTGTGGAGATCATGGCTCCAGTTTTTTCGCGCAAGGCCTGGCGCTGTGTGTGGCATATGATTCAAAATGACTTGGTGCATGGCTGGGGACTAGACTTT atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.tatttttgtcttatctacccataccaaactgtatccaattatgttatgtatgcagATTTGTTGAGATTATGGCTCCAGTGTTTTCACGAGATGCATGGCATTGTGTGTGGCATATGATTCAG
aattatgttatgtat 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gtaagcatcagttgaagcattatttttgtcttatctacccataccaaactgtatccaattatgttatgtatgcagATTTGTTGAGATTATGGCTCCAGTGTTTTCACGAGATGCATGGCATTGTGTGTGGCATATGATTCAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GAGATG