Sequence
atgc intronic sequence ATGC exonic sequence...tgatcctgattttgacagtggagcatacacattggccatttgtagatttttaagttacgcagtaaacattaatacggaccgtgggatatgactattgcagGGAAATCATGCATGCAATGTGGAAGCCTCAGAAGTTCAAATATATATATCTTTATGCAACAGTTTATGTGTTCACCCTCACTCTACCATCTGCTATTGCC
Basic information
species | Glycine max |
transcript | GLYMA18G03280.1 |
intron # | 6 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GLYMA18G03280.1 (Glycine max), 3'ss of exon 6
lower sequence: Vv13s0067g00330.t01 (Vitis vinifera), 3'ss of exon 6
tgatcctgattttg-acagtggagcatacacattggcc--atttgtag-atttttaagttacgcagtaaacattaatacggaccgtgggatatgactat--tgcagGGAAATCATGCATGCAATGTGGAAGCCTCAGAAGTTCAAATATATATATCTTTATGCAACAGTTTATGTGTTCACCCTCACTCTACCATCTGCTATTGCC
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------agattttacacactattgcagacaggttattccaattattagcatttctcaacaaactaattggggttctgggttttctttcgttttttttttcttctagGGAAATCATGCATGCAATGTGGAAGCCTCAAAAATTCAAGTACATATACCTTGTTGCCACCCTATATGTATTCACCCTAACAATTCCATCGGCTGTTGCG
upper sequence: GLYMA18G03280.1 (Glycine max), 3'ss of exon 6
lower sequence: EFJ18760 (Selaginella moellendorffii), 3'ss of exon 5
--------------------------------------------------------------------------------tgatcctgattttgacagtggagcatacacatt--ggccatttgtagatttttaag------ttacgcagtaaacattaatacggacc-gtgggatatgactat--tgcagGGAAATCATGCATGCAATGTGGAAGCCTCAGAAGTTCAAATATATATATCTTTATGCAACAGTTTATGTGTTCACCCTCACTCTACCATCTGCTATTGCC
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gtaagtcgatcatgattctcacggcaccactttgcttgatcctacgatatcattccatcgattccctcctttttctttcctgttcttcctgctcagatcaaatcatacccctccggatcaaatcaagttttttcttacttctttttgcaagaccagatgatataactaagttgtttgtggttttcttgcagAGAAATCATGCATGCTATGTGGAAGCCTTCAAAGTTTAAGTCAGTTTACCTCTTCTCAACCTTGTATGTGCTCACCTTGACAATACCATCTGCTACAGCC
upper sequence: GLYMA18G03280.1 (Glycine max), 3'ss of exon 6
lower sequence: EFJ36050 (Selaginella moellendorffii), 3'ss of exon 5
--------------------------------------------------------------------------------tgatcctgattttgacagtggagcatacacatt--ggccatttgtagatttttaag------ttacgcagtaaacattaatacggaccgtgggatatgactattgcagGGAAATCATGCATGCAATGTGGAAGCCTCAGAAGTTCAAATATATATATCTTTATGCAACAGTTTATGTGTTCACCCTCACTCTACCATCTGCTATTGCC
|| || | | | | | | ||| | | | | || | || ||||| || ||| | | ||| | | | |||||| |||||||||||||| |||||||||||| ||||| || | | || || | |||| | |||||| ||||| | || |||||||||||| |||
gtaagtcgatcatgattctcacggcaccactttgcttgatcctacgatatcattccatcgattccctcctttttctttcctgttcttcctgctcagatcaaatcattcccttccggatcaaatcaagttttttcttacttctttttgcaagaccagatgatatagctaagtttgtggttttcttgcagAGAAATCATGCATGCTATGTGGAAGCCTTCAAAGTTTAAGTCAGTTTACCTCTTCTCAACCTTGTATGTGCTCACCTTGACAATACCATCTGCTACAGCC atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.atttttaagttacgcagtaaacattaatacggaccgtgggatatgactattgcagGGAAATCATGCATGCAATGTGGAAGCCTCAGAAGTTCAAATATATATATCTTTATGCAACAGTTTATGTGTTCACCCTCACTCTACCATCTGCTATTGCC
cattaat putative branch site (score: 3)
agtaaacattaata 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
tgatcctgattttgacagtggagcatacacattggccatttgtagatttttaagttacgcagtaaacattaatacggaccgtgggatatgactattgcagGGAAATCATGCATGCAATGTGGAAGCCTCAGAAGTTCAAATATATATATCTTTATGCAACAGTTTATGTGTTCACCCTCACTCTACCATCTGCTATTGCC
- - cctgatt
- - - - - - - - - - - -catacac
- - - - - - - - - - - - - - - - - -ccatttg