Sequence
atgc intronic sequence ATGC exonic sequence...tagcgatggatctgatgacttctattaagggtttttgataatatatcaatattctgattgtacttaattcacttattcctatttttattttgttctacagCCTTGTTCAATGGGCTTTGCCACTGGTGGACAAACATTCTTTTTGTGGGGAGGGTGCATGATGGCAA
Basic information
species | Glycine max |
transcript | GLYMA01G01130.1 |
intron # | 6 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GLYMA01G01130.1 (Glycine max), 3'ss of exon 6
lower sequence: LOC_Os01g67870.1 (Oryza sativa), 3'ss of exon 7
tagcgatggatctgatgacttctattaagggtttttgataatatatcaatattctgattgtacttaattcacttattcctattt-ttatt-----ttgttctacagCCTTGTTCAATGGGCTTTGCCACTGGTGGACAAACATTCTTTTTGTGGGGAGGGTGCATGATGGCAA
|| | | || | | | | | | ||| |||| | ||| | || || ||| || | |||| || | | | |||||||||||||| || ||||| |||||||| | || |||||||||||||| || |||||||||
-----ctgttttcgtaagctagttatttagttctgtatctccctatttttatttttatttttattt-tttactcttttcgatttactaataaagaccatattgcagCCTTGTTCAATTGGATTTGCAACTGGTGGGAAGACTTTCTTTTTGTGGGGTGGCTGCATGATG----
upper sequence: GLYMA01G01130.1 (Glycine max), 3'ss of exon 6
lower sequence: AT2G19880.1 (Arabidopsis thaliana), 3'ss of exon 7
------tagcgatggat-ctgatgacttctattaagggtttttgataatatatcaatattctg-attgta-cttaattcacttattcctatttttattttgttctacagCCTTGTTCAATGGGCTTTGCCACTGGTGGACAAACATTCTTTTTGTGGGGAGGGTGCATGATGGCAA
||| || ||| | |||| ||| ||| | || | | | ||| | | | || ||| || | | | || || || | ||| |||||||| |||||||| ||||| ||||||||| ||||||||||||||||||||| || ||||||
gtacggtagatataatcactggttacttttatcaagt-tgttaggttgtttataattgtagcatatcgtaatttgagctaatatttggcatgttcactttc-----cagCCTTGCTCAATGGGATTTGCGACTGGTGGAAGAACATTCTTTTTGTGGGGAGGATGTATGATG----
upper sequence: GLYMA01G01130.1 (Glycine max), 3'ss of exon 6
lower sequence: Vv11s0016g03130.t01 (Vitis vinifera), 3'ss of exon 7
--------tagcgatggatctgatgacttctattaagggtttttgataatatatcaatattctgattgtacttaattcacttattcctatttttattttgttctacagCCTTGTTCAATGGGCTTTGCCACTGGTGGACAAACATTCTTTTTGTGGGGAGGGTGCATGATGGCAA
| | ||| |||| ||| || || | || || | ||| | || | || | || || | | ||| | || | ||||||||||||| ||||| || || || |||||| ||||||||||||||||||||||||| ||||||
gtacatattggtgatagatccttcaactcctgaatagattgatttgtact-tattaga-----gaaaatgtctagattgattttttttgtcttt--tctgatttacagCCTTGTTCGATGGGTTTCGCTACAGGTGGAAAAACATTCTTTTTGTGGGGAGGGTGTATGATG----
upper sequence: GLYMA01G01130.1 (Glycine max), 3'ss of exon 6
lower sequence: EFJ38341 (Selaginella moellendorffii), 3'ss of exon 6
tagcgatggatctgatgacttctattaagggtttttgataatatatcaatattctgattgtacttaattcacttattcctatttttattttgttctacagCCTTGTTCAATGGGCTTTGCCACTGGTGGACAAACATTCTTTTTGTGGGGAGGGTGCATGATGGCAA
| || | | ||| | || || | | || | | | | | ||||| |||||||| || ||||| || |||||| ||| |||||||||||||| || |||||||||
--------------------------------------------gtaaagactttga--aaattttgctctccagatactgatatcaagacgattatcagCCCTGTTCAATTGGTTTTGCGACCGGTGGAAGAACTTTCTTTTTGTGGGGCGGATGCATGATG---- atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.tcaatattctgattgtacttaattcacttattcctatttttattttgttctacagCCTTGTTCAATGGGCTTTGCCACTGGTGGACAAACATTCTTTTTGTGGGGAGGGTGCATGATGGCAA
ttcctatttttatttt CT-rich tract
ttaattcacttattcc 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
tagcgatggatctgatgacttctattaagggtttttgataatatatcaatattctgattgtacttaattcacttattcctatttttattttgttctacagCCTTGTTCAATGGGCTTTGCCACTGGTGGACAAACATTCTTTTTGTGGGGAGGGTGCATGATGGCAA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TGGTGG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GGTGGA
- - - - - - tgatgac
- - - - - - - - - - - - - - gggtttt
- - - - - - - - - - - - - - - - - - - - - - - - - - -ctgattg