Sequence
atgc intronic sequence ATGC exonic sequence...acatctcgagtagcattgcttgggcatacaatgctatgttatgttcttttagctcggttgttggaatgaaatataatgagtgactgtactcttgcaacagATTTGATGCAAGGAATATGTTGGAAAAGCTACGGGACAAGCGACTAGTGTTTGTTGGTGATTCGATTGGAAGGAATCAATGGGAATCACTCCTTTGTATG
Basic information
species | Glycine max |
transcript | GLYMA19G33730.1 |
intron # | 1 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GLYMA19G33730.1 (Glycine max), 3'ss of exon 1
lower sequence: GRMZM2G025250_T01 (Zea mays), 3'ss of exon 2
---acatctcgagtagcattgcttgggcatacaatgctatgttatgtt--cttttagctcggttgttggaatgaaatataatgagtgactgtactcttgcaacagATTTGATGCAAGGAATATGTTGGAAAAGCTACGGGACAAGCGACTAGTGTTTGTTGGTGATTCGATTGGAAGGAATCAATGGGAATCACTCCTTTGTATG
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tttataactgaaggacaatctgaaagatccacatttccactctagcataatcactaatctttttctctgacttggtcatattctttctttgatttgtt-----agATTTGATGCCAAAAGCATGCTGGAGAAGCTACGAAACAAAAGAGTGGTTTTTGTTGGTGATTCAATTGGAAGGAACCAATGGGAGTCTCTACTTTGTATG
upper sequence: GLYMA19G33730.1 (Glycine max), 3'ss of exon 1
lower sequence: AT5G19160.1 (Arabidopsis thaliana), 3'ss of exon 1
---------------------------------------------------------------------acatctcgagtagcattgcttgggcata-------caatgctatgt-tatgttcttttagctcggttgttggaatgaaatataatgagtgactgtactct-tgcaacagATTTGATGCAAGGAATATGTTGGAAAAGCTACGGGACAAGCGACTAGTGTTTGTTGGTGATTCGATTGGAAGGAATCAATGGGAATCACTCCTTTGTATG
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gtaaatgtttcattttctctctttgtttgatgttctgggattagaaatgttatgtttaggaaatattgtatggcatgagtagagtaagttaggaggaagaactttagaaccatatgtgttacttttgaattcagttact----taaagcttactcatttttgttatggaatgtatcagATTTGATGCTAAGTTGATGTTGGAGAAGCTAAGGAACAAGCGGCTAGTGTTTGTAGGAGACTCAATTGGAAGAAACCAATGGGAGTCTCTTCTTTGTATG
upper sequence: GLYMA19G33730.1 (Glycine max), 3'ss of exon 1
lower sequence: Vv07s0104g00120.t01 (Vitis vinifera), 3'ss of exon 1
---------acatctcgagtagcattgcttgggcatacaatgctatgttatgttcttttagctcggttgttggaatgaaatataatgagtgactgtactcttgcaacagATTTGATGCAAGGAATATGTTGGAAAAGCTACGGGACAAGCGACTAGTGTTTGTTGGTGATTCGATTGGAAGGAATCAATGGGAATCACTCCTTTGTATG
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ttttttttaaattttttaaagactttaattaggaaaaagaa--taggaagaaggatgttattttgatcttttc-------ttttttccttaattctattttgaatacagATTTGATGCAAACGTCATGTTGGAGAAGCTGAGGAACCGGCGGGTTGTGTTTGTTGGTGATTCCATTGGAAGAAACCAATGGGAATCCCTTCTTTGCATG atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.cttttagctcggttgttggaatgaaatataatgagtgactgtactcttgcaacagATTTGATGCAAGGAATATGTTGGAAAAGCTACGGGACAAGCGACTAGTGTTTGTTGGTGATTCGATTGGAAGGAATCAATGGGAATCACTCCTTTGTATG
tactctt CT-rich tract
aatgaaatataatga 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
acatctcgagtagcattgcttgggcatacaatgctatgttatgttcttttagctcggttgttggaatgaaatataatgagtgactgtactcttgcaacagATTTGATGCAAGGAATATGTTGGAAAAGCTACGGGACAAGCGACTAGTGTTTGTTGGTGATTCGATTGGAAGGAATCAATGGGAATCACTCCTTTGTATG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TGGAAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGGAA
- - - - - - - - tgcttgg
- - - - - - - - - - - -gcataca
- - - - - - - - - - - - - - - -tgctatg
- - - - - - - - - - - - - - - - - - - - - - - - - - - - gttgttg
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - aaatataa
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -gtgactg