Sequence
atgc intronic sequence ATGC exonic sequencegtgagaattatctactcttggagatagatgtgtgagagttttggtttttaattaataccatttgtattgtagGTGTTGTGATTATGCTCTTTTGATACTAGAACATTGGCCTGATGCAGCAGAAGTACAACGATCGGCTGATCTATATGAGGATATGATAAGGTGTTGTGTT
Basic information
species | Glycine max |
transcript | GLYMA13G19230.1 |
intron # | 10 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GLYMA13G19230.1 (Glycine max), 3'ss of exon 10
lower sequence: GRMZM2G052078_T02 (Zea mays), 3'ss of exon 10
gtgagaattatctactcttggagatagatgtgtgagagttttg---gtttttaattaataccatttgtattgtagGTGTTGTGATTATGCTCTTTTGATACTAGAACATTGGCCTGATGCAGCAGAAGTACAACGATCGGCTGATCTATATGAGGATATGATAAGGTGTTGTGTT
|| | | | ||| || | | | | ||| |||||||| | ||| | |||| ||||| ||||| ||||| ||| ||||||| || ||||| ||||||| ||||| ||||||| || |||||| |||||||||||||||||| || |||||
gtaaatgtgtttgactgttttcacattgtccattggtttcttgccagtttttaagtt-tacttgtactattccagGTGCTGTGAGTATGCACTTCTGATACTGGAGTATTGGGCTGATGCCTCAGAAATACAACGTTCAGCTGATTTATATGAGGATATGATAAAATGCTGTGTC
upper sequence: GLYMA13G19230.1 (Glycine max), 3'ss of exon 10
lower sequence: Vv07s0005g05030.t01 (Vitis vinifera), 3'ss of exon 7
gtgagaattatctactcttgg---agatagatgtgtgagagttttggtttttaatt-aatacca--------tttgtattgtagGTGTTGTGATTATGCTCTTTTGATACTAGAACATTGGCCTGATGCAGCAGAAGTACAACGATCGGCTGATCTATATGAGGATATGATAAGGTGTTGTGTT
|| || | || | || | | || || | | | | || | | || | |||| | ||| ||||| ||||||||||| ||| | || |||||||||||| ||||| |||||||| ||||| ||||||| || || || |||||||| ||| | || | ||||||||||
gtttgactctgcttttgttagtttgggtatatttttttgtatgtttttcctaaactcaatattacattctcttttctattgcagGTGTTGTGAATATTCACTCTTGATACTAGAATATTGGGCTGATGCACCAGAAATACAACGCTCAGCAGACCTATATGAAGATCTTATCAAGTGTTGTGTT
upper sequence: GLYMA13G19230.1 (Glycine max), 3'ss of exon 10
lower sequence: EFJ13050 (Selaginella moellendorffii), 3'ss of exon 4
gtgagaattatcta-ctcttggagatagatgtgtgagagttttggtttttaattaataccatttgtattgtagGTGTTGTGATTATGCTCTTTTGATACTAGAACATTGGCCTGATGCAGCAGAAGTACAACGATCGGCTGATCTATATGAGGATATGATAAGGTGTTGTGTT
| | | || ||||| | || || ||| | | | | ||| | || || |||||||| || |||||||||||||||||||| ||||| ||| | ||||| | ||||| || || || || ||||| ||| | || | || ||||||
----gtacagtttagctctttcaactaaata-atgaagataacaatgtgt----gatattactt-------agATGTTGTGAATACGCTCTTTTGATACTAGAACAGTGGCCGGATACTCCAGAAATCCAACGTTCAGCCGAACTTTATGAAGATCTTATCAAATGCTGTGTT
upper sequence: GLYMA13G19230.1 (Glycine max), 3'ss of exon 10
lower sequence: EFJ14058 (Selaginella moellendorffii), 3'ss of exon 4
gtgagaattatcta-ctcttggagatagatgtgtgagagttttggtttttaattaataccatttgtattgtagGTGTTGTGATTATGCTCTTTTGATACTAGAACATTGGCCTGATGCAGCAGAAGTACAACGATCGGCTGATCTATATGAGGATATGATAAGGTGTTGTGTT
| | | || ||||| || || || ||| | | | | ||| | || ||||||||||| || |||||||||||||||||||| ||||| ||| | ||||| | ||||| || || || || ||||| ||| | || | || ||||||
----gtacagtttagctctttgaactaaata-atgaagataacaatgtat----gatattactt-------agGTGTTGTGAATACGCTCTTTTGATACTAGAACAGTGGCCGGATACTCCAGAAATCCAACGTTCAGCCGAACTTTATGAAGATCTTATCAAATGCTGTGTT atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.ttggagatagatgtgtgagagttttggtttttaattaataccatttgtattgtagGTGTTGTGATTATGCTCTTTTGATACTAGAACATTGGCCTGATGCAGCAGAAGTACAACGATCGGCTGATCTATATGAGGATATGATAAGGTGTTGTGTT
aattaat putative branch site (score: 3)
tttttaattaatacca 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gtgagaattatctactcttggagatagatgtgtgagagttttggtttttaattaataccatttgtattgtagGTGTTGTGATTATGCTCTTTTGATACTAGAACATTGGCCTGATGCAGCAGAAGTACAACGATCGGCTGATCTATATGAGGATATGATAAGGTGTTGTGTT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GCTGAT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GAGGAT