Sequence
atgc intronic sequence ATGC exonic sequencegtaagttaattactattatgtagaattttatttttttgatagtgagtgtaattgtaatttttgaaatcatacttatttaatcgtccaatgattttcttgtgtgtgtatatgcttataaatatgaatgtataaatgttgcagGCGTATTCTACGGTTGGTACACCGGATTATATTGCTCCAGAAGTTCTAATGAAAAAAGGTTATGGGATGGAATGTGATTG
Basic information
species | Glycine max |
transcript | GLYMA19G34920.1 |
intron # | 5 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GLYMA19G34920.1 (Glycine max), 3'ss of exon 5
lower sequence: LOC_Os10g33640.1 (Oryza sativa), 3'ss of exon 5
gtaagttaattactattatgtagaattttatttt--tttgatagtgagtgtaattgtaatttttgaaatcat-acttatttaatcgtccaatgattttcttgtgtgtgtatatgcttataaatatgaatgtataaatgttgcagGCGTATTCTACGGTTGGTACACCGGATTATATTGCTCCAGAAGTTCTAATGAAAAAAGGTTATGGGATGGAATGTGATTG
|| ||| | | | | || | | ||| | | || | | ||| ||| | |||| | ||||| | || | | | || || | ||| || | | | | | || | || ||||| || || || || ||||||||||| || ||||||||||||||||| | ||||| |||||||| ||||| ||||||||
gttagtagctagcaaatgtgccaacaatcattagaaacttcttcagaattcacctgttattccttgtgtcattatctatttctcaatgcattcagaatttt---cgtttccatgttt-tgactggcagttaatga---tttcagGCATACTCCACTGTCGGTACACCGGACTACATTGCTCCAGAAGTTCTTCTAAAAAAGGGTTATGGAATGGAGTGTGATTG
upper sequence: GLYMA19G34920.1 (Glycine max), 3'ss of exon 5
lower sequence: Vv07s0005g03690.t01 (Vitis vinifera), 3'ss of exon 5
gtaagttaattactattatgtagaattttatttttttgatagtgagtgtaattgtaatttttgaaatcatacttatttaatcgtccaatgattttcttgtgtgtgtatatgcttata-aatatgaatgtataaatgttgcagGCGTATTCTACGGTTGGTACACCGGATTATATTGCTCCAGAAGTTCTAATGAAAAAAGGTTATGGGATGGAATGTGATTG
|| | || | | ||||| ||| ||| | ||||| || | | | ||| | || | ||| | || | || |||||||| |||||||| ||||| ||||| || ||||| |||||||||||| || |||| ||||||||||||||||||||||||||
-------------------------------------catcatttgtctcagaaaaatttagaaaaaagagggcctttttcctctcaatg----cctggggactttatttttttctgtaatgttcatattcgaac-ttgcagGCTTATTCTACTGTTGGGACACCAGACTATATCGCTCCAGAAGTTTTATTGAAGAAAGGTTATGGGATGGAATGTGATTG
upper sequence: GLYMA19G34920.1 (Glycine max), 3'ss of exon 5
lower sequence: EFJ28086 (Selaginella moellendorffii), 3'ss of exon 5
gtaagttaattactattatgtagaattttatttttttgatagtgagtgtaattgtaatttttgaaatcatacttatttaatcgtccaatgatttt-cttgtgtgtgtatatgcttataaatatgaatgtataaatgttgcagGCGTATTCTACGGTTGGTACACCGGATTATATTGCTCCAGAAGTTCTAATGAAAAAAGGTTATGGGATGGAATGTGATTG
|| | | || | ||| | ||| || || | | | ||| | | ||||| ||||| || || || || || |||||||||||||| ||||||||| |||| || || || |||||||| ||||||||
----------------------------------------------------------------------------------gtgcgtagcttgtacttccttttgtcccgattttta--tctaagtgttc---tttaacagGCTTATTCAACTGTCGGGACGCCAGATTATATTGCTCCCGAAGTTCTACTGAAGAAGGGATACGGGATGGAGTGTGATTG
upper sequence: GLYMA19G34920.1 (Glycine max), 3'ss of exon 5
lower sequence: EFJ29515 (Selaginella moellendorffii), 3'ss of exon 5
gtaagttaattactattatgtagaattttatttttttgatagtgagtgtaattgtaatttttgaaatcatacttatttaatcgtccaatgattttcttgtgtgtgtatatgcttataaatatgaatgtataaatgttg-cagGCGTATTCTACGGTTGGTACACCGGATTATATTGCTCCAGAAGTTCTAATGAAAAAAGGTTATGGGATGGAATGTGATTG
|| | ||||| | | || | | | | | || ||||| ||||| || || || || || |||||||||||||| ||||||||| |||| || || || |||||||| ||||||||
---------------------------------------------------------------------------------------gtgcgtagcttgtacttccttttgtcccgatttttatctaagtttcctttaacagGCTTATTCAACTGTCGGGACGCCAGATTATATTGCTCCCGAAGTTCTACTGAAGAAGGGATACGGGATGGAGTGTGATTG atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.aatgattttcttgtgtgtgtatatgcttataaatatgaatgtataaatgttgcagGCGTATTCTACGGTTGGTACACCGGATTATATTGCTCCAGAAGTTCTAATGAAAAAAGGTTATGGGATGGAATGTGATTG
tatatgcttataaata 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gtaagttaattactattatgtagaattttatttttttgatagtgagtgtaattgtaatttttgaaatcatacttatttaatcgtccaatgattttcttgtgtgtgtatatgcttataaatatgaatgtataaatgttgcagGCGTATTCTACGGTTGGTACACCGGATTATATTGCTCCAGAAGTTCTAATGAAAAAAGGTTATGGGATGGAATGTGATTG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGAAGT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GATGGA