Sequence
atgc intronic sequence ATGC exonic sequencegtatggctgatgcattttttctttttaattttaggcggtgcgtgattgatggtgttgttggttttgtttttcaattggatgcctagGGCGAGTGATAAATGTCAGAGAGAGAAGAGGAAGACTATTAATGGGGATGATTTGCTCTGGGCAATGGCGACTTTAGGGTTTGAGGATTATATTGATCCG
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: Vv08s0040g03260.t01 (Vitis vinifera), 3'ss of exon 1
lower sequence: GRMZM2G064426_T02 (Zea mays), 3'ss of exon 2
-------------------------------------------------------------gtatggctgatgcattttttctttttaattttaggcggtgc---gtgattgatggtgt-tgttggttttgtttttcaattggatgcctagGGCGAGTGATAAATGTCAGAGAGAGAAGAGGAAGACTATTAATGGGGATGATTTGCTCTGGGCAATGGCGACTTTAGGGTTTGAGGATTATATTGATCCG
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gtaagtccctcggccgcggctgactctgactcttctgtttgcttggcatgttgggaattcagagtggc-gtttcgcaaaccgcactttagcttaggtggggttttgtgttgacttgtctacgtccacgttccttgtctgctgtttgc--agGGCGAGTGACAAGTGCCAGAGGGAGAAGCGGAAGACCATCAATGGCGACGACCTGCTGTGGGCCATGGCCACGCTGGGGTTTGAGGACTATATTGAACCC
upper sequence: Vv08s0040g03260.t01 (Vitis vinifera), 3'ss of exon 1
lower sequence: GLYMA03G33490.1 (Glycine max), 3'ss of exon 2
gtatggctgatgcattttttctttttaattttaggcggtgcgtgattgatggt----gttgttggttttgtttttcaa-----ttggatgcc-tagGGCGAGTGATAAATGTCAGAGAGAGAAGAGGAAGACTATTAATGGGGATGATTTGCTCTGGGCAATGGCGACTTTAGGGTTTGAGGATTATATTGATCCG
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gt-tagtgtgttttttttttcttctgattcttttctcctccgtttttcttatttatcatcgcctgcttttaatttaaaattccttgaattctgtagGGCCTCTGATAAGTGTCAGAGAGAAAAGAGAAAGACTATTAACGGCGATGATTTGCTCTGGGCGATGGCCACTCTCGGTTTCGAGGATTATATGGATCCT
upper sequence: Vv08s0040g03260.t01 (Vitis vinifera), 3'ss of exon 1
lower sequence: GLYMA19G36220.1 (Glycine max), 3'ss of exon 2
-------------------gtatggctgatgcattttttctttttaattttaggcggtgcgtgattgatggtgttgttggttttgtttttcaattggatgcctagGGCGAGTGATAAATGTCAGAGAGAGAAGAGGAAGACTATTAATGGGGATGATTTGCTCTGGGCAATGGCGACTTTAGGGTTTGAGGATTATATTGATCCG
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gttagtgtctttttcttttctttttcttatg-attcattctcttccgttttttctcttattatatc-atcccgtgctttaatttcgaatccgtttaatcgtgtagGGCCTCTGATAAGTGTCAGAGGGAAAAGAGAAAGACTATTAACGGTGATGATTTGCTCTGGGCCATGGCCACTCTTGGTTTTGAGGATTATATCGATCCT
upper sequence: Vv08s0040g03260.t01 (Vitis vinifera), 3'ss of exon 1
lower sequence: AT2G37060.3 (Arabidopsis thaliana), 3'ss of exon 2
-----------------gtatggctgatgcattttttctttttaattttaggcggtgcgtgattgatggtgttgttggttttgtttttcaattggatgcctagGGCGAGTGATAAATGTCAGAGAGAGAAGAGGAAGACTATTAATGGGGATGATTTGCTCTGGGCAATGGCGACTTTAGGGTTTGAGGATTATATTGATCCG
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agtccttacattggttactctttcttgttgttcatctttgtttggcttt-gatgttgcatatttgatgatgcaat-ggtttt-tctatgacgttgatgagcagAGCGAGTGATAAATGTCAAAGAGAGAAAAGGAAGACTATTAATGGAGATGATTTGCTTTGGGCAATGGCTACTTTAGGATTTGAAGACTACATGGAACCT
upper sequence: Vv08s0040g03260.t01 (Vitis vinifera), 3'ss of exon 1
lower sequence: AT3G53340.1 (Arabidopsis thaliana), 3'ss of exon 2
-----------------------------------------------------gtatggc---tgatgcattttttctttttaattttaggcggtgcgtgattgatggtgttgttgg------------ttttgtttttcaa-------ttggatgcctagGGCGAGTGATAAATGTCAGAGAGAGAAGAGGAAGACTATTAATGGGGATGATTTGCTCTGGGCAATGGCGACTTTAGGGTTTGAGGATTATATTGATCCG
||| || | | || | || || |||| || | || ||| || | |||||| | | | |||| | || | |||||| |||||||| || || |||||||| |||||||| || ||||| ||||||||||| ||||| ||||| |||||||| || || ||||| || |||||
gtaatttctttctctactttctcaaaaatgttacctttttgttgctttggtggttatagcgtgtaaagccctcttctttgttaagttagattgatgttatattcattgggttgttaagcaaagtcactatgtcgattttggaatattgttttgccttttagGGCTAGTGATAAGTGCCAAAGAGAGAAAAGGAAGACCATCAATGGAGATGATTTGCTTTGGGCTATGGCCACTTTAGGATTCGAAGATTACATCGATCCC
upper sequence: Vv08s0040g03260.t01 (Vitis vinifera), 3'ss of exon 1
lower sequence: EFJ24973 (Selaginella moellendorffii), 3'ss of exon 1
gtatggctgatgcattttttctttttaattttaggcggtgcgt-gattgatggtgttgttggttttgtttttcaattggatgcctagGGCGAGTGATAAATGTCAGAGAGAGAAGAGGAAGACTATTAATGGGGATGATTTGCTCTGGGCAATGGCGACTTTAGGGTTTGAGGATTATATTGATCCG
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--------------------gtaagtattgctggaagttctttcgatcctttgtggtgatactatcttcttctactttg-----cagAGCCAGTGACAAGTGCCAAAGAGAGAAGAGGAAGACGATCAATGGCGATGACTTGCTATGGGCAATGAGCACGCTGGGCTTCGAGGAGTACTTGGAACCT
upper sequence: Vv08s0040g03260.t01 (Vitis vinifera), 3'ss of exon 1
lower sequence: EFJ15374 (Selaginella moellendorffii), 3'ss of exon 1
gtatggctgatgcattttttctttttaattttaggcggtgcgtgattgatggtgttgttggttttgtttttcaattggatgcctagGGCGAGTGATAAATGTCAGAGAGAGAAGAGGAAGACTATTAATGGGGATGATTTGCTCTGGGCAATGGCGACTTTAGGGTTTGAGGATTATATTGATCCG
||| | | | | | || ||||| |||| | | || ||| | | ||| || ||||| || || || ||||||||||||||||| || ||||| ||||| ||||| ||||||||| || | || || ||||| || | || ||
------------------------gtaagtattgct--tcgatcctttgtggtgatgttaactatcttcttctactt----tgtagAGCCAGTGACAAGTGCCAAAGAGAGAAGAGGAAGACGATCAATGGCGATGACTTGCTATGGGCAATGAGCACGCTGGGCTTCGAGGAGTACTTGGAACCT atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.taggcggtgcgtgattgatggtgttgttggttttgtttttcaattggatgcctagGGCGAGTGATAAATGTCAGAGAGAGAAGAGGAAGACTATTAATGGGGATGATTTGCTCTGGGCAATGGCGACTTTAGGGTTTGAGGATTATATTGATCCG
gattgat putative branch site (score: 4)
ttttgtttttcaatt 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gtatggctgatgcattttttctttttaattttaggcggtgcgtgattgatggtgttgttggttttgtttttcaattggatgcctagGGCGAGTGATAAATGTCAGAGAGAGAAGAGGAAGACTATTAATGGGGATGATTTGCTCTGGGCAATGGCGACTTTAGGGTTTGAGGATTATATTGATCCG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GAGGAT