Sequence
atgc intronic sequence ATGC exonic sequencegtatgctactctctctttttctcttcatctctatccttttggttctcctttttccctcagtttcatgattttttttccatgtttcttgcagTACAATGAAATCCTTGGCAAAGGAGCTTCAAAGACAGT
Basic information
species | Glycine max |
transcript | GLYMA10G30210.1 |
intron # | 1 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GLYMA10G30210.1 (Glycine max), 3'ss of exon 1
lower sequence: AT3G04910.2 (Arabidopsis thaliana), 3'ss of exon 1
gta-tgctactctctctttttctcttcatctctatccttttggttctcctttttccctcagtttcatgattttttttccatgtttcttgcagTACAATGAAATCCTTGGCAAAGGAGCTTCAAAGACAGT
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gtaatgtttcctcctatcaatcaatcaatctcaattattttgtttgatcttttg---ttgacttcattgttcttgttg--------ttgcagTACAATGAAGTTCTTGGTAAAGGAGCTTCAAAGACT--
upper sequence: GLYMA10G30210.1 (Glycine max), 3'ss of exon 1
lower sequence: AT3G04910.1 (Arabidopsis thaliana), 3'ss of exon 1
gta-tgctactctctctttttctcttcatctctatccttttggttctcctttttccctcagtttcatgattttttttccatgtttcttgcagTACAATGAAATCCTTGGCAAAGGAGCTTCAAAGACAGT
||| || | | || | || | ||||| || ||||| || ||||| | ||||| || || || ||||||||||||||| | ||||| ||||||||||||||||| ||
gtaatgtttcctcctatcaatcaatcaatctcaattattttgtttgatcttttg---ttgacttcattgttcttgttg--------ttgcagTACAATGAAGTTCTTGGTAAAGGAGCTTCAAAGACTGT
upper sequence: GLYMA10G30210.1 (Glycine max), 3'ss of exon 1
lower sequence: Vv05s0020g03380.t01 (Vitis vinifera), 3'ss of exon 1
gtatgctactctctctttttctcttcatctctatccttttggttctcctttttccctcagtttcatgattttttttccatgtttcttgcagTACAATGAAATCCTTGGCAAAGGAGCTTCAAAGACAGT
|| ||| |||| || || | || | | |||| || || | || || || | ||||| | | | ||||||||||||||||| ||||||||||||||||| ||||||||
-----gtaatct-tcttgttttccttggctttgttgctttg-ttttcttcattttct---attgactgtttttgggctgc-tattttgcagTACAATGAAATTCTTGGCAAAGGAGCTTCCAAGACAGT atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.ttttggttctcctttttccctcagtttcatgattttttttccatgtttcttgcagTACAATGAAATCCTTGGCAAAGGAGCTTCAAAGACAGT
ttttttttccatgttt CT-rich tract
tttcatgatttttttt 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gtatgctactctctctttttctcttcatctctatccttttggttctcctttttccctcagtttcatgattttttttccatgtttcttgcagTACAATGAAATCCTTGGCAAAGGAGCTTCAAAGACAGT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GCAAAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGGAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GGAGCT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GAGCTT