Sequence
atgc intronic sequence ATGC exonic sequencegttcgttcttatttcactttcttaaacgttcaattttttttctacggcaattcaattaaagttttttgtgatttgtaaaaaaaaataataataataacagGACAAGGCTAGGAAGAGGTTTTTGGTGAGGAACATTGTTGAACAGGCTTTAGTCAGAGAT
Basic information
species | Glycine max |
transcript | GLYMA12G16600.1 |
intron # | 1 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GLYMA12G16600.1 (Glycine max), 3'ss of exon 1
lower sequence: GRMZM5G899149_T01 (Zea mays), 3'ss of exon 2
---gttcgttcttatttcactttctt--aaacgttcaattttttttctacggcaattcaattaaagttttttgtgatttgtaaaaaaaaataataataataacagGACAAGGCTAGGAAGAGGTTTTTGGTGAGGAACATTGTTGAACAGGCTTTAGTCAGAGAT-------------------------
| || | | ||| |||| | | ||| || | || || | | | | || | |||| || | | | || | ||||| ||||||| ||| |||| |||||||||||||||||||| |||||| || ||||||
tgtgctcagacatgtttgacttgcattgcaacattagaacttaattttgc-----tctgaactgtgtatgttgtagaagatatatgatgtttgctgtacttgcagGATAAGGCTATCAAGCGGTTCTTGGTGAGGAACATTGTTGAGCAGGCTGCCGTGAGAGATGTGCAGGAGGCCTGTGTACATGATG
upper sequence: GLYMA12G16600.1 (Glycine max), 3'ss of exon 1
lower sequence: GRMZM2G129015_T02 (Zea mays), 3'ss of exon 2
gttcgttcttatttcactttcttaaacgttcaattttttttctacggcaattcaattaaagttttttgtgatttgtaaaaaaaaataataat-----aataacagGACAAGGCTAGGAAGAGGTTTTTGGTGAGGAACATTGTTGAACAGGCTTTAGTCAGAGAT-------------------------
|||||| | | ||| |||| | | ||| | || ||| | || || | |||| | | || | | ||||| ||||||| ||| |||| |||||||||||||||||||| |||||| || || ||
----gttcttggat-attttgacctgcgttgcaatatttgggctcaattatctgtcgaaactgttgtggaaaatgtatgacgttggcactattttttactcgcagGATAAGGCTATCAAGCGGTTCTTGGTGAGGAACATTGTTGAGCAGGCTGCTGTGAGGGACGTGCAGGAGGCCTGTGTGCATGATG
upper sequence: GLYMA12G16600.1 (Glycine max), 3'ss of exon 1
lower sequence: Vv13s0067g02700.t01 (Vitis vinifera), 3'ss of exon 3
gttcgttcttatttcactttcttaaacgttcaattttttttctacggcaattcaattaaagttttttgtgatttgtaaaaaaaaataataataataacagGACAAGGCTAGGAAGAGGTTTTTGGTGAGGAACATTGTTGAACAGGCTTTAGTCAGAGAT-------------------------
||| | || || | || | | |||| ||| || |||| ||| || ||| | | ||||||||||| | ||||||||||||||||||||||| || || || ||| ||| || |||
-----gtctcgctccatttgtattctgatttagtggtttt---gtatcaaagcatcagtagttg-----aattggtgcgtgtttggaattgtgtgatcagGACAAGGCAATCAAGAGGTTTTTGGTGAGGAACATCGTGGAGCAAGCTGCAGTGAGGGATGTTCAGGAGGCCTGCGTCTATGACA atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.ggcaattcaattaaagttttttgtgatttgtaaaaaaaaataataataataacagGACAAGGCTAGGAAGAGGTTTTTGGTGAGGAACATTGTTGAACAGGCTTTAGTCAGAGAT
aattaaagttttttgt 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gttcgttcttatttcactttcttaaacgttcaattttttttctacggcaattcaattaaagttttttgtgatttgtaaaaaaaaataataataataacagGACAAGGCTAGGAAGAGGTTTTTGGTGAGGAACATTGTTGAACAGGCTTTAGTCAGAGAT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GGAAGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGAGG