Sequence
atgc intronic sequence ATGC exonic sequence...gagacaaaaaagatatttaaactagtaatgatgtgaaatatcattttctgagagatatcttgatcttccaaacactaatcatagttaaaatgttgtccagTTCTTGGAACCCCTTGAGCTCTGTTACAGATCACTCTGTGCTTGTGGCGATCGAGCAATTGCTGATGGAAGCCTTCTAGATTTCTTGAGACAAGTCTCTA
Basic information
species | Glycine max |
transcript | GLYMA06G33380.1 |
intron # | 7 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GLYMA06G33380.1 (Glycine max), 3'ss of exon 7
lower sequence: LOC_Os01g55350.1 (Oryza sativa), 3'ss of exon 9
gagacaaaaaagatatttaaactagtaatgatgtgaaatatcattttctgagagatatcttgatcttccaaacactaatcatagttaaaatgttgtccagTTCTTGGAACCCCTTGAGCTCTGTTACAGATCACTCTGTGCTTGTGGCGATCGAGCAATTGCTGATGGAAGCCTTCTAGATTTCTTGAGACAAGTCTCTA
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------------gtacataggctaa-gatacaaaaaacttgcttactatgctatacgttttggttgtcc---ttctggttgaaggtttcttcttttgcagTTCTTGGAGCCTCTTGAGCTCTGTTACAGGTCTCTCTGTGCCTGTGGTGATAATTCTATTGCAGATGGCAGTCTTCTTGACTTTCTACGGCAAGTGTCCA
upper sequence: GLYMA06G33380.1 (Glycine max), 3'ss of exon 7
lower sequence: GRMZM2G110714_T01 (Zea mays), 3'ss of exon 7
gagacaaaaaagatatttaaactagtaatgatgtgaaatatcattttctgagagatatcttgatcttccaaacactaatcatagttaaaatgttgtcc------agTTCTTGGAACCCCTTGAGCTCTGTTACAGATCACTCTGTGCTTGTGGCGATCGAGCAATTGCTGATGGAAGCCTTCTAGATTTCTTGAGACAAGTCTCTA
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caggttgaaac-ataaccaagata--aaggatctttctaaccgtttt--gggatatattatg-ttttatggattctcgtctcgagtgagtcttttttctcttgcagTTCTTGGAGCCTCTTGAGCTCTGTTACAGATCTCTGTGTGCCTGTGGTGATCGCTCTGTTGCGGATGGAAGCCTTCTTGACTTCTTAAGGCAAGTGTCAA
upper sequence: GLYMA06G33380.1 (Glycine max), 3'ss of exon 7
lower sequence: GRMZM2G473001_T01 (Zea mays), 3'ss of exon 7
gagacaaaaaagatatttaaactagtaatgatgtgaaatatcattttctgagagatatcttgatcttccaaacactaatcatagttaaaatgttgtccagTTCTTGGAACCCCTTGAGCTCTGTTACAGATCACTCTGTGCTTGTGGCGATCGAGCAATTGCTGATGGAAGCCTTCTAGATTTCTTGAGACAAGTCTCTA
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--------gttgagaattaa-ccagtaatattcagaaa-ataatatt----gatttttgtttttcctcagcgggttc-tgatagatgccatcttttgtagCTGTTGGAGCCCTTGGAACTATGTTACAGATCACTCTGTGCTTGTGGTGACTCTGTAATTGCTGATGGAACCCTTCTGGATTTCTTGCGTCAAGTGTCCA
upper sequence: GLYMA06G33380.1 (Glycine max), 3'ss of exon 7
lower sequence: Vv19s0014g01390.t01 (Vitis vinifera), 3'ss of exon 7
gagacaaaaaagatatt--taaactagtaatgatgtgaaatatcattttctgagaga-tatcttgatcttccaaacactaatcat-agttaaaatgttgtccagTTCTTGGAACCCCTTGAGCTCTGTTACAGATCACTCTGTGCTTGTGGCGATCGAGCAATTGCTGATGGAAGCCTTCTAGATTTCTTGAGACAAGTCTCTA
|| | || || ||| ||| | | | | | | | | | | | | | | | ||| || | ||| | | || | ||||||||||||| ||||| ||||||||||||||||||||||||||||| || ||| |||||||||||||||||||||| ||||| |||||||||| || |
----cagattgcattttattaatctaccattttttttcctttttgcatagttcttgtctgtttagctggattaggtactgattgggaattatatttttttgtagTTCTTGGAACCTCTTGAACTCTGTTACAGATCACTCTGTGCTTGTGGTGACCGACCAATTGCTGATGGAAGCCTTCTCGATTTTCTGAGACAAGTGTCCA atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.ttctgagagatatcttgatcttccaaacactaatcatagttaaaatgttgtccagTTCTTGGAACCCCTTGAGCTCTGTTACAGATCACTCTGTGCTTGTGGCGATCGAGCAATTGCTGATGGAAGCCTTCTAGATTTCTTGAGACAAGTCTCTA
cactaat putative branch site (score: 2)
taatcatagttaaaat 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gagacaaaaaagatatttaaactagtaatgatgtgaaatatcattttctgagagatatcttgatcttccaaacactaatcatagttaaaatgttgtccagTTCTTGGAACCCCTTGAGCTCTGTTACAGATCACTCTGTGCTTGTGGCGATCGAGCAATTGCTGATGGAAGCCTTCTAGATTTCTTGAGACAAGTCTCTA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GCTGAT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GATGGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TGGAAG
- - -aaaaaag
- - - - - - - - - - - - - - tgatgtg
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -ccaaaca